diff options
| author | Zachary Sloan | 2012-10-24 17:39:43 -0500 |
|---|---|---|
| committer | Zachary Sloan | 2012-10-24 17:39:43 -0500 |
| commit | 55d78345ba1cd2f56b1aecabf5bb3753bfd7ca13 (patch) | |
| tree | 14ae73aa7c0634e21f5729b0ff7a355e2891cabd /wqflask | |
| parent | 4b90c959c9a65c2b42250b2fcfc9a8ffbf63fd7e (diff) | |
| download | genenetwork2-55d78345ba1cd2f56b1aecabf5bb3753bfd7ca13.tar.gz | |
Now builds json datastructure for menus correctly
Diffstat (limited to 'wqflask')
| -rwxr-xr-x | wqflask/base/webqtlFormData.py | 57 | ||||
| -rw-r--r-- | wqflask/maintenance/gen_select_dataset.py | 97 | ||||
| -rw-r--r-- | wqflask/wqflask/correlation/CorrelationPage.py | 25 | ||||
| -rw-r--r-- | wqflask/wqflask/search_results.py | 67 | ||||
| -rw-r--r-- | wqflask/wqflask/static/new/javascript/dataset_menu_structure | 4004 | ||||
| -rw-r--r-- | wqflask/wqflask/views.py | 9 |
6 files changed, 203 insertions, 4056 deletions
diff --git a/wqflask/base/webqtlFormData.py b/wqflask/base/webqtlFormData.py index 710c9f53..ff1db0e8 100755 --- a/wqflask/base/webqtlFormData.py +++ b/wqflask/base/webqtlFormData.py @@ -44,9 +44,9 @@ from utility import webqtlUtil -class webqtlFormData: +class webqtlFormData(object): 'Represents data from a WebQTL form page, needed to generate the next page' - + attrs = ('formID','RISet','genotype','samplelist','allsamplelist', 'display_variance' 'suggestive','significance','submitID','identification', 'enablevariance', 'nperm','nboot','email','incparentsf1','genotype_1','genotype_2','traitInfo') @@ -62,7 +62,7 @@ class webqtlFormData: print("in webqtlFormData start_vars are:", pf(start_vars)) for item in webqtlFormData.attrs: self.__dict__[item] = None - + #ZS: This is only used in DataEditingPage.py (as far as I know) self.varianceDispName = None @@ -103,7 +103,7 @@ class webqtlFormData: self.ppolar = None self.mpolar = None - + print("[yellow] self.RISet is:", self.RISet) if self.RISet: #try: @@ -112,13 +112,13 @@ class webqtlFormData: #except: # f1 = f12 = self.mpolar = self.ppolar = None - + def set_number(stringy): return int(stringy) if stringy else 2000 # Rob asked to change the default value to 2000 self.nperm = set_number(self.nperm) self.nboot = set_number(self.nboot) - + #if self.allsamplelist: # self.allsamplelist = map(string.strip, string.split(self.allsamplelist)) @@ -134,6 +134,7 @@ class webqtlFormData: def __getitem__(self, key): + print("in __getitem__") return self.__dict__[key] def get(self, key, default=None): @@ -154,22 +155,22 @@ class webqtlFormData: '''read genotype from .geno file''' if self.RISet == 'BXD300': self.RISet = 'BXD' - + assert self.RISet, "self.RISet needs to be set" - + #genotype_1 is Dataset Object without parents and f1 #genotype_2 is Dataset Object with parents and f1 (not for intercross) - + self.genotype_1 = reaper.Dataset() - + full_filename = os.path.join(webqtlConfig.GENODIR, self.RISet + '.geno') - + # reaper barfs on unicode filenames, so here we ensure it's a string full_filename = str(full_filename) self.genotype_1.read(full_filename) - + print("Got to after read") - + try: # NL, 07/27/2010. ParInfo has been moved from webqtlForm.py to webqtlUtil.py; _f1, _f12, _mat, _pat = webqtlUtil.ParInfo[self.RISet] @@ -186,16 +187,16 @@ class webqtlFormData: else: self.incparentsf1 = 0 self.genotype = self.genotype_1 - + self.samplelist = list(self.genotype.prgy) self.f1list = [] self.parlist = [] - + if _f1 and _f12: self.f1list = [_f1, _f12] if _mat and _pat: self.parlist = [_mat, _pat] - + def readData(self, samplelist, incf1=None): '''read user input data or from trait data and analysis form''' @@ -213,11 +214,11 @@ class webqtlFormData: #print("before traitfiledata self.traitfile is:", pf(self.traitfile)) - traitfiledata = getattr(self, "traitfile", None) - traitpastedata = getattr(self, "traitpaste", None) - variancefiledata = getattr(self, "variancefile", None) - variancepastedata = getattr(self, "variancepaste", None) - Nfiledata = getattr(self, "Nfile", None) + traitfiledata = getattr(self, "traitfile", None) + traitpastedata = getattr(self, "traitpaste", None) + variancefiledata = getattr(self, "variancefile", None) + variancepastedata = getattr(self, "variancepaste", None) + Nfiledata = getattr(self, "Nfile", None) #### Todo: Rewrite below when we get to someone submitting their own trait ##### @@ -246,7 +247,7 @@ class webqtlFormData: elif len(values) > len(samplelist): values = values[:len(samplelist)] print("now values is:", values) - + if variancefiledata: tt = variancefiledata.split() @@ -282,16 +283,16 @@ class webqtlFormData: def informativeStrains(self, samplelist=None, include_variances = None): '''if readData was called, use this to output informative samples (sample with values)''' - + if not samplelist: samplelist = self.samplelist - + samples = [] values = [] variances = [] - + #print("self.allTraitData is:", pf(self.allTraitData)) - + for sample in samplelist: if sample in self.allTraitData: _val, _var = self.allTraitData[sample].value, self.allTraitData[sample].variance @@ -305,13 +306,13 @@ class webqtlFormData: samples.append(sample) values.append(_val) variances.append(None) - + return samples, values, variances, len(samples) #def FormDataAsFloat(self, key): - # + # # #try: # # return float(self.key) # #except: diff --git a/wqflask/maintenance/gen_select_dataset.py b/wqflask/maintenance/gen_select_dataset.py index 33813051..9224b884 100644 --- a/wqflask/maintenance/gen_select_dataset.py +++ b/wqflask/maintenance/gen_select_dataset.py @@ -76,17 +76,22 @@ def get_types(groups): types[species] = {} for group_name, _group_full_name in group_dict: # make group an alias to shorten the code - group = types[species][group_name] = [("Phenotypes", "Phenotypes"), - ("Genotypes", "Genotypes")] - Cursor.execute("""select distinct Tissue.Name, concat(Tissue.Name, ' mRNA') from - ProbeFreeze, - ProbeSetFreeze, InbredSet, Tissue where ProbeFreeze.TissueId = Tissue.Id and + types[species][group_name] = [("Phenotypes", "Phenotypes"), ("Genotypes", "Genotypes")] + types[species][group_name] += build_types(species, group_name) + return types + + +def build_types(species, group): + Cursor.execute("""select distinct Tissue.Name, concat(Tissue.Name, ' mRNA') + from ProbeFreeze, ProbeSetFreeze, InbredSet, Tissue, Species + where Species.Name = %s and Species.Id = InbredSet.SpeciesId and + InbredSet.Name = %s and + ProbeFreeze.TissueId = Tissue.Id and ProbeFreeze.InbredSetId = InbredSet.Id and - InbredSet.Name = %s and ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id and + ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id and ProbeSetFreeze.public > %s - order by Tissue.Name""", (group_name, webqtlConfig.PUBLICTHRESH)) - group += Cursor.fetchall() - return types + order by Tissue.Name""", (species, group, webqtlConfig.PUBLICTHRESH)) + return Cursor.fetchall() def get_datasets(types): @@ -97,39 +102,44 @@ def get_datasets(types): for group, type_list in group_dict.iteritems(): datasets[species][group] = {} for type_name, type_full_name in type_list: - dataset_text = dataset_value = None - if type_name == "Phenotypes": - dataset_value = "%sPublish" % group - if group == 'MDP': - dataset_text = "Mouse Phenome Database" - else: - dataset_text = "%s Published Phenotypes" % group - - elif type_name == "Genotypes": - dataset_value = "%sGeno" % group - dataset_text = "%s Genotypes" % group - - if dataset_value: - datasets[species][group][type_name] = [(dataset_value, dataset_text)] - else: - Cursor.execute("""select ProbeSetFreeze.Name, ProbeSetFreeze.FullName from - ProbeSetFreeze, ProbeFreeze, InbredSet, Tissue where - ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id and Tissue.Name = %s - and ProbeFreeze.TissueId = Tissue.Id and ProbeFreeze.InbredSetId = - InbredSet.Id and ProbeSetFreeze.public > %s order by - ProbeSetFreeze.CreateTime desc""", (type_name, - webqtlConfig.PUBLICTHRESH)) - datasets[species][group][type_name] = Cursor.fetchall() - + datasets[species][group][type_name] = build_datasets(species, group, type_name) return datasets +def build_datasets(species, group, type_name): + dataset_text = dataset_value = None + if type_name == "Phenotypes": + dataset_value = "%sPublish" % group + if group == 'MDP': + dataset_text = "Mouse Phenome Database" + else: + dataset_text = "%s Published Phenotypes" % group + + elif type_name == "Genotypes": + dataset_value = "%sGeno" % group + dataset_text = "%s Genotypes" % group + + if dataset_value: + return [(dataset_value, dataset_text)] + else: + Cursor.execute("""select ProbeSetFreeze.Name, ProbeSetFreeze.FullName from + ProbeSetFreeze, ProbeFreeze, InbredSet, Tissue, Species where + Species.Name = %s and Species.Id = InbredSet.SpeciesId and + InbredSet.Name = %s and + ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id and Tissue.Name = %s + and ProbeFreeze.TissueId = Tissue.Id and ProbeFreeze.InbredSetId = + InbredSet.Id and ProbeSetFreeze.public > %s order by + ProbeSetFreeze.CreateTime desc""", ( + species, group, type_name, webqtlConfig.PUBLICTHRESH)) + return Cursor.fetchall() + + def main(): species = get_species() groups = get_groups(species) types = get_types(groups) datasets = get_datasets(types) - + species.append(('All Species', 'All Species')) groups['All Species'] = [('All Groups', 'All Groups')] types['All Species'] = {} @@ -137,18 +147,25 @@ def main(): datasets['All Species'] = {} datasets['All Species']['All Groups'] = {} datasets['All Species']['All Groups']['Phenotypes'] = [('All Phenotypes','All Phenotypes')] - + data = dict(species=species, groups=groups, types=types, datasets=datasets, ) - - output_file = """../wqflask/static/new/javascript/dataset_menu_structure.json""" - + + output_file = """../wqflask/static/new/javascript/dataset_menu_structure""" + with open(output_file, 'w') as fh: json.dump(data, fh, indent=" ", sort_keys=True) - + + print("\nWrote file to:", output_file) + +def test_it(): + types = build_types("Mouse", "BXD") + print("build_types:", pf(types)) + datasets = build_datasets("Mouse", "BXD", "Hippocampus") + print("build_datasets:", pf(datasets)) if __name__ == '__main__': - main()
\ No newline at end of file + main() diff --git a/wqflask/wqflask/correlation/CorrelationPage.py b/wqflask/wqflask/correlation/CorrelationPage.py index a9db493b..e48ea412 100644 --- a/wqflask/wqflask/correlation/CorrelationPage.py +++ b/wqflask/wqflask/correlation/CorrelationPage.py @@ -54,9 +54,6 @@ from dbFunction import webqtlDatabaseFunction import utility.webqtlUtil #this is for parallel computing only. import correlationFunction -import logging -logging.basicConfig(filename="/tmp/gn_log", level=logging.INFO) -_log = logging.getLogger("correlation") METHOD_SAMPLE_PEARSON = "1" METHOD_SAMPLE_RANK = "2" @@ -72,9 +69,9 @@ class AuthException(Exception): pass class Trait(object): - - - def __init__(self, name, raw_values = None, lit_corr = None, tissue_corr = None, p_tissue = None): + + + def __init__(self, name, raw_values = None, lit_corr = None, tissue_corr = None, p_tissue = None): self.name = name self.raw_values = raw_values self.lit_corr = lit_corr @@ -281,12 +278,12 @@ class CorrelationPage(templatePage): def __init__(self, fd): #print("in CorrelationPage __init__ fd is:", pf(fd.__dict__)) # Call the superclass constructor - + # Put everything in fd into self self.__dict__.update(fd.__dict__) - + templatePage.__init__(self, fd) - + #print("in CorrelationPage __init__ now fd is:", pf(fd.__dict__)) # Connect to the database if not self.openMysql(): @@ -298,13 +295,13 @@ class CorrelationPage(templatePage): sample_list = get_sample_data(fd) print("sample_list is", pf(sample_list)) - + # Whether the user chose BXD Only, Non-BXD Only, or All Strains # (replace BXD with whatever the group/inbredset name is) # "mdp" stands for "mouse diversity panel" This is outdated; it now represents any # cases/strains from the non-primary group - mdp_choice = fd.MDPChoice if fd.allstrainlist else None - + mdp_choice = fd.MDPChoice if fd.allstrainlist else None + self.species = get_species(fd, self.cursor) #XZ, 09/18/2008: get all information about the user selected database. @@ -334,11 +331,11 @@ class CorrelationPage(templatePage): if len(self.sample_names) < self.corr_min_informative: detail = ['Fewer than %d strain data were entered for %s data set. No calculation of correlation has been attempted.' % (self.corr_min_informative, fd.RISet)] self.error(heading=None, detail=detail) - + for key, value in self.__dict__.items(): if key.startswith("corr"): print("[red] %s - %s" % (key, value)) - + #correlation_method = self.CORRELATION_METHODS[self.method] #rankOrder = self.RANK_ORDERS[self.method] diff --git a/wqflask/wqflask/search_results.py b/wqflask/wqflask/search_results.py index 585deb8f..d44fbcef 100644 --- a/wqflask/wqflask/search_results.py +++ b/wqflask/wqflask/search_results.py @@ -36,17 +36,17 @@ from wqflask import parser from utility import webqtlUtil from dbFunction import webqtlDatabaseFunction -import logging -logging.basicConfig(filename=app.config['LOGFILE'], level=logging.INFO) - -_log = logging.getLogger("search") -_ch = logging.StreamHandler() -_log.addHandler(_ch) +#import logging +#logging.basicConfig(filename=app.config['LOGFILE'], level=logging.INFO) +# +#_log = logging.getLogger("search") +#_ch = logging.StreamHandler() +#_log.addHandler(_ch) from utility import formatting import sys -_log.info("sys.path is: %s" % (sys.path)) +#_log.info("sys.path is: %s" % (sys.path)) #from base.JinjaPage import JinjaEnv, JinjaPage @@ -60,20 +60,29 @@ class SearchResultPage(templatePage): nkeywords = 0 def __init__(self, fd): + print("initing SearchResultPage") + import logging_tree + logging_tree.printout() self.fd = fd if not self.openMysql(): - return + print("ge0") + #return + print("ge0.5") + #causeerror + print("type of fd:", type(fd)) self.database = [fd['database']] - + print("ge0.55") if not self.database or self.database == 'spacer': #Error, No database selected heading = "Search Result" detail = ['''No database was selected for this search, please go back and SELECT at least one database.'''] + print("ge0.6") self.error(heading=heading,detail=detail,error="No Database Selected") - return + #return + print("ge1") ########################################### # Names and IDs of RISet / F2 set ########################################### @@ -102,12 +111,12 @@ class SearchResultPage(templatePage): # Can't use paramater substitution for table names apparently db_type = self.database[0].type + "Freeze" print("db_type [%s]: %s" % (type(db_type), db_type)) - + query = '''SELECT Id, Name, FullName, confidentiality, AuthorisedUsers FROM %s WHERE Name = %%s''' % (db_type) - + self.cursor.execute(query, (individualDB,)) - + (indId, indName, indFullName, @@ -140,6 +149,7 @@ class SearchResultPage(templatePage): self.error(heading=heading,detail=detail,error="No Database Selected") return + print("ge2") self.database[0].getRISet() self.databaseCrosses = [self.database[0].riset] self.databaseCrossIds = [self.database[0].risetid] @@ -159,6 +169,8 @@ class SearchResultPage(templatePage): detail = ["Search can only be performed among the same type of databases"] self.error(heading=heading,detail=detail,error="Error") return + + print("ge3") if self.dbType == "Publish": self.searchField = ['Phenotype.Post_publication_description', 'Phenotype.Pre_publication_description', @@ -182,7 +194,8 @@ class SearchResultPage(templatePage): 'RefSeq_TranscriptId'] elif self.dbType == "Geno": self.searchField = ['Name','Chr'] - + + print("ge4") self.do_search() ########################################### @@ -202,7 +215,7 @@ class SearchResultPage(templatePage): ########################################### # Generate Mysql Query ########################################### - + # Sam: We presume lines below aren't used... #geneIdListQuery = fd.get('geneId', '') #if geneIdListQuery: @@ -346,7 +359,7 @@ class SearchResultPage(templatePage): #self.dict['js1'] = '' #self.dict['js2'] = 'onLoad="pageOffset()"' #self.dict['layer'] = self.generateWarningLayer() - + def start_search(self): pass @@ -674,7 +687,7 @@ class SearchResultPage(templatePage): item = item['search_term'] self.nkeywords += 1 #ZS: If there are both AND and OR keywords, just use the OR keywords - if k >=len(self.ORkeyword2): + if k >=len(self.ORkeyword2): query = self.ANDQuery DescriptionText = self.ANDDescriptionText clausejoin = ' OR ' @@ -763,7 +776,7 @@ class SearchResultPage(templatePage): detail = ["Pattern search is not available for phenotype databases at this time."] self.error(heading=heading,detail=detail,error="Error") return 0 - elif (self.dbType == "ProbeSet" and + elif (self.dbType == "ProbeSet" and ((_2Cmds and reduce(lambda x, y: (y not in [ "MEAN", "LRS", "PVALUE", "TRANSLRS", "CISLRS", "RANGE", "H2" ]) or x, _2Cmds, False))\ @@ -877,29 +890,29 @@ class SearchResultPage(templatePage): query = self.ORQuery DescriptionText = self.ORDescriptionText itemCmd = item[0] - - + + chr_number = item[1] # chromosome number lower_limit = float(item[2]) upper_limit = float(item[3]) - + if self.dbType == "ProbeSet": fname = 'target genes' elif self.dbType == "Geno": fname = 'loci' - + if lower_limit > upper_limit: lower_limit, upper_limit = upper_limit, lower_limit - + clauseItem = " %s.Chr = '%s' and %s.Mb > %2.7f and %s.Mb < %2.7f " % ( self.dbType, chr_number, self.dbType, lower_limit, self.dbType, upper_limit) - - + + query.append(" (%s) " % clauseItem) self.orderByDefalut = itemCmd - - self.results_desc = dict() + + self.results_desc = dict() #DescriptionText.append(HT.Span(' with ', HT.U('target genes'), ' on chromosome %s between %g and %g Mb' % \ # (chr_number, min(lower_limit, upper_limit), max(lower_limit, upper_limit)))) diff --git a/wqflask/wqflask/static/new/javascript/dataset_menu_structure b/wqflask/wqflask/static/new/javascript/dataset_menu_structure index d25d3cf5..1b7e4090 100644 --- a/wqflask/wqflask/static/new/javascript/dataset_menu_structure +++ b/wqflask/wqflask/static/new/javascript/dataset_menu_structure @@ -78,18 +78,6 @@ [ "B1MI0809R", "Barley1 Leaf MOCK TTKS (Aug09) RMA" - ], - [ - "B30_K_1206_M", - "Barley1 Leaf MAS 5.0 SCRI (Dec06)" - ], - [ - "B30_K_1206_R", - "Barley1 Leaf gcRMA SCRI (Dec06)" - ], - [ - "B30_K_1206_Rn", - "Barley1 Leaf gcRMAn SCRI (Dec06)" ] ], "Phenotypes": [ @@ -122,32 +110,16 @@ ], "Leaf": [ [ - "B1LI0809R", - "Barley1 Leaf INOC TTKS (Aug09) RMA" - ], - [ - "B1LI0809M5", - "Barley1 Leaf INOC TTKS (Aug09) MAS5" - ], - [ - "B1MI0809M5", - "Barley1 Leaf MOCK TTKS (Aug09) MAS5" - ], - [ - "B1MI0809R", - "Barley1 Leaf MOCK TTKS (Aug09) RMA" - ], - [ "B30_K_1206_M", "Barley1 Leaf MAS 5.0 SCRI (Dec06)" ], [ - "B30_K_1206_R", - "Barley1 Leaf gcRMA SCRI (Dec06)" - ], - [ "B30_K_1206_Rn", "Barley1 Leaf gcRMAn SCRI (Dec06)" + ], + [ + "B30_K_1206_R", + "Barley1 Leaf gcRMA SCRI (Dec06)" ] ], "Phenotypes": [ @@ -176,14 +148,6 @@ [ "NCSU_DrosWB_LC_RMA_0111", "NCSU Drosophila Whole Body (Jan11) RMA" - ], - [ - "UAB_DrosWB_LC_RMA_1009", - "UAB Whole body D.m. mRNA control (Oct09) RMA" - ], - [ - "UAB_DrosWB_LE_RMA_1009", - "UAB Whole body D.m. mRNA lead (pbAc) (Oct09) RMA" ] ] }, @@ -202,10 +166,6 @@ ], "Whole Body": [ [ - "NCSU_DrosWB_LC_RMA_0111", - "NCSU Drosophila Whole Body (Jan11) RMA" - ], - [ "UAB_DrosWB_LC_RMA_1009", "UAB Whole body D.m. mRNA control (Oct09) RMA" ], @@ -220,14 +180,6 @@ "AD-cases-controls": { "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ - "GSE15222_F_A_RI_0409", - "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" - ], - [ "GSE5281_F_RMA_N_0709", "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" ], @@ -236,116 +188,12 @@ "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" ], [ - "INIA_MacFas_brain_RMA_0110", - "INIA Macaca fasicularis Brain (Jan10) RMA **" - ], - [ - "GSE15222_F_RI_0409", - "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ "GSE5281_F_RMA0709", "GSE5281 Human Brain Full Liang (Jul09) RMA" ], [ "GSE5281_RMA0709", "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_MALE", - "UCLA CTB6B6CTF2 Brain Male mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ - "UCLA_BHF2_BRAIN_FEMALE", - "UCLA BHF2 Brain Female mlratio" - ], - [ - "UCLA_BHHBF2_BRAIN_FEMALE", - "UCLA BHHBF2 Brain Female Only" - ], - [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ - "UCLA_BHHBF2_BRAIN_2005", - "UCLA BHHBF2 Brain (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_2005", - "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_0605", - "UCLA BHF2 Brain (June05) mlratio" - ], - [ - "BR_M2_1106_R", - "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" - ], - [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ - "BR_U_1105_P", - "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" - ], - [ - "BR_U_0805_M", - "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" - ], - [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ - "BR_U_0805_R", - "UTHSC Brain mRNA U74Av2 (Aug05) RMA" - ], - [ - "BRF2_M_0805_R", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" - ], - [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" - ], - [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" - ], - [ - "BRF2_M_0304_M", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" - ], - [ - "CB_M_0204_P", - "INIA Brain mRNA M430 (Feb04) PDNN" ] ], "Genotypes": [ @@ -364,132 +212,16 @@ "AD-cases-controls-Myers": { "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ "GSE15222_F_A_RI_0409", "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" ], [ - "GSE5281_F_RMA_N_0709", - "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" - ], - [ - "GSE5281_F_RMA_Alzh_0709", - "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" - ], - [ - "INIA_MacFas_brain_RMA_0110", - "INIA Macaca fasicularis Brain (Jan10) RMA **" + "GSE15222_F_N_RI_0409", + "GSE15222 Human Brain Normal Myers (Apr09) RankInv" ], [ "GSE15222_F_RI_0409", "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA0709", - "GSE5281 Human Brain Full Liang (Jul09) RMA" - ], - [ - "GSE5281_RMA0709", - "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_MALE", - "UCLA CTB6B6CTF2 Brain Male mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ - "UCLA_BHF2_BRAIN_FEMALE", - "UCLA BHF2 Brain Female mlratio" - ], - [ - "UCLA_BHHBF2_BRAIN_FEMALE", - "UCLA BHHBF2 Brain Female Only" - ], - [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ - "UCLA_BHHBF2_BRAIN_2005", - "UCLA BHHBF2 Brain (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_2005", - "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_0605", - "UCLA BHF2 Brain (June05) mlratio" - ], - [ - "BR_M2_1106_R", - "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" - ], - [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ - "BR_U_1105_P", - "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" - ], - [ - "BR_U_0805_M", - "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" - ], - [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ - "BR_U_0805_R", - "UTHSC Brain mRNA U74Av2 (Aug05) RMA" - ], - [ - "BRF2_M_0805_R", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" - ], - [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" - ], - [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" - ], - [ - "BRF2_M_0304_M", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" - ], - [ - "CB_M_0204_P", - "INIA Brain mRNA M430 (Feb04) PDNN" ] ], "Genotypes": [ @@ -566,46 +298,6 @@ [ "HBTRC-MLC_HD_0611", "HBTRC-MLC Human Cerebellum Agilent HD (Jun11) mlratio" - ], - [ - "GCB_M2_0505_M", - "GE-NIAAA Cerebellum mRNA M430v2 (May05) MAS5" - ], - [ - "GCB_M2_0505_R", - "GE-NIAAA Cerebellum mRNA M430v2 (May05) RMA" - ], - [ - "GCB_M2_0505_P", - "GE-NIAAA Cerebellum mRNA M430v2 (May05) PDNN" - ], - [ - "CB_M_0305_R", - "SJUT Cerebellum mRNA M430 (Mar05) RMA" - ], - [ - "CB_M_0305_M", - "SJUT Cerebellum mRNA M430 (Mar05) MAS5" - ], - [ - "CB_M_0305_P", - "SJUT Cerebellum mRNA M430 (Mar05) PDNN" - ], - [ - "CB_M_1004_R", - "SJUT Cerebellum mRNA M430 (Oct04) RMA" - ], - [ - "CB_M_1004_M", - "SJUT Cerebellum mRNA M430 (Oct04) MAS5" - ], - [ - "CB_M_1004_P", - "SJUT Cerebellum mRNA M430 (Oct04) PDNN" - ], - [ - "CB_M_1003_M", - "SJUT Cerebellum mRNA M430 (Oct03) MAS5" ] ], "Genotypes": [ @@ -636,58 +328,10 @@ [ "HBTRC-MLPFC_HD_0611", "HBTRC-MLC Human Prefrontal Cortex Agilent HD (Jun11) mlratio" - ], - [ - "INIA_MacFas_Pf_RMA_0110", - "INIA Macaca fasicularis Prefrontal Cortex control (Jan10) RMA **" - ], - [ - "INIA_MacFas_PfE_RMA_0110", - "INIA Macaca fasicularis Prefrontal Cortex ethanol (Jan10) RMA **" - ], - [ - "VCUSal_1006_R", - "VCU BXD PFC Et vs Sal M430 2.0 (Dec06) Sscore" - ], - [ - "VCUEtOH_1206_R", - "VCU BXD PFC EtOH M430 2.0 (Dec06) RMA" - ], - [ - "VCUSal_1206_R", - "VCU BXD PFC Sal M430 2.0 (Dec06) RMA" - ], - [ - "VCU_PF_Air_0111_R", - "VCU BXD PFC CIE Air M430 2.0 (Jan11) RMA **" - ], - [ - "VCU_PF_Et_0111_R", - "VCU BXD PFC CIE EtOH M430 2.0 (Jan11) RMA **" - ], - [ - "VCU_PF_AvE_0111_Ss", - "VCU BXD PFC EtOH vs CIE Air M430 2.0 (Jan11) Sscore **" - ], - [ - "VCUEt_vs_Sal_0806_R", - "VCU LXS PFC Et vs Sal M430A 2.0 (Aug06) Sscore **" - ], - [ - "VCUEtOH_0806_R", - "VCU LXS PFC EtOH M430A 2.0 (Aug06) RMA **" - ], - [ - "VCUSal_0806_R", - "VCU LXS PFC Sal M430A 2.0 (Aug06) RMA" ] ], "Primary Visual Cortex": [ [ - "KIN_YSM_V1C_0711", - "KIN/YSM Human V1C Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ "HBTRC-MLVC_0611", "HBTRC-MLC Human Visual Cortex Agilent (Jun11) mlratio" ], @@ -714,22 +358,6 @@ ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ "HLC_0311", "GSE9588 Human Liver Normal (Mar11) Both Sexes" ], @@ -738,102 +366,6 @@ "GSE9588 Human Liver Normal (Mar11) Males" ], [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ "HLCF_0311", "GSE9588 Human Liver Normal (Mar11) Females" ] @@ -850,30 +382,6 @@ [ "KIN_YSM_AMY_0711", "KIN/YSM Human AMY Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "INIA_AmgCoh_0311", - "INIA Amygdala Cohort Affy MoGene 1.0 ST (Mar11) RMA" - ], - [ - "INIA_Amg_BLA_RMA_1110", - "INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA" - ], - [ - "INIA_Amg_BLA_RMA_M_1110", - "INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA Male" - ], - [ - "INIA_Amg_BLA_RMA_F_1110", - "INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA Female" - ], - [ - "INIA_MacFas_AMGc_RMA_0110", - "INIA Macaca fasicularis Amygdala control (Jan10) RMA **" - ], - [ - "INIA_MacFas_AMGe_RMA_0110", - "INIA Macaca fasicularis Amygdala ethanol (Jan10) RMA **" ] ], "Caudal Ganglionic Eminence": [ @@ -922,122 +430,6 @@ [ "KIN_YSM_HIP_0711", "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ - "HC_M2_0606_MDP", - "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ - "OXUKHS_ILMHipp_RI0510", - "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ - "INIA_MacFas_Hc_RMA_0110", - "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" - ], - [ - "INIA_MacFas_He_RMA_0110", - "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ - "UT_HippRatEx_RMA_0709", - "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ - "Illum_LXS_Hipp_loess0807", - "Hippocampus Illumina (Aug07) LOESS" - ], - [ - "Illum_LXS_Hipp_loess_nb0807", - "Hippocampus Illumina (Aug07) LOESS_NB" - ], - [ - "Illum_LXS_Hipp_quant0807", - "Hippocampus Illumina (Aug07) QUANT" - ], - [ - "Illum_LXS_Hipp_quant_nb0807", - "Hippocampus Illumina (Aug07) QUANT_NB" - ], - [ - "Illum_LXS_Hipp_rsn0807", - "Hippocampus Illumina (Aug07) RSN" - ], - [ - "Illum_LXS_Hipp_rsn_nb0807", - "Hippocampus Illumina (Aug07) RSN_NB" - ], - [ - "Hipp_Illumina_RankInv_0507", - "Hippocampus Illumina (May07) RankInv" - ], - [ - "HC_M2_0606_P", - "Hippocampus Consortium M430v2 (Jun06) PDNN" - ], - [ - "HC_M2_0606_M", - "Hippocampus Consortium M430v2 (Jun06) MAS5" - ], - [ - "HC_M2_0606_R", - "Hippocampus Consortium M430v2 (Jun06) RMA" - ], - [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ - "HC_M2CB_1205_P", - "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ - "UMUTAffyExon_0209_RMA", - "UMUTAffy Hippocampus Exon (Feb09) RMA" - ], - [ - "UT_ILM_BXD_hipp_NON_0909", - "UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOS_0909", - "UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOE_0909", - "UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSS_0909", - "UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSE_0909", - "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOE_1008", - "Hippocampus Illumina NOE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSS_1008", - "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Inferior Temporal Cortex": [ @@ -1128,96 +520,12 @@ [ "KIN_YSM_V1C_0711", "KIN/YSM Human V1C Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "HBTRC-MLVC_0611", - "HBTRC-MLC Human Visual Cortex Agilent (Jun11) mlratio" - ], - [ - "HBTRC-MLVC_N_0611", - "HBTRC-MLC Human Visual Cortex Agilent Normal (Jun11) mlratio" - ], - [ - "HBTRC-MLVC_AD_0611", - "HBTRC-MLC Human Visual Cortex Agilent AD (Jun11) mlratio" - ], - [ - "HBTRC-MLVC_HD_0611", - "HBTRC-MLC Human Visual Cortex Agilent HD (Jun11) mlratio" ] ], "Striatum": [ [ - "DevStriatum_ILM6.2P3RInv_1111", - "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov11) RankInv **" - ], - [ - "DevStriatum_ILM6.2P14RInv_1111", - "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov11) RankInv **" - ], - [ "KIN_YSM_STR_0711", "KIN/YSM Human STR Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "OHSU_HS-CC_ILMStr_0211", - "OHSU HS-CC Striatum ILM6v1 (Feb11) RankInv" - ], - [ - "UTHSC_Striatum_RankInv_1210", - "HQF BXD Striatum ILM6.1 (Dec10v2) RankInv" - ], - [ - "UTHSC_Str_RankInv_1210", - "HQF BXD Striatum ILM6.1 (Dec10) RankInv" - ], - [ - "UTHSC_1107_RankInv", - "HQF BXD Striatum ILM6.1 (Nov07) RankInv" - ], - [ - "SA_M2_0905_P", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN" - ], - [ - "SA_M2_0905_M", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5" - ], - [ - "SA_M2_0905_R", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA" - ], - [ - "SA_M2_0405_MC", - "HBP Rosen Striatum M430V2 (Apr05) MAS5 Clean" - ], - [ - "SA_M2_0405_RC", - "HBP Rosen Striatum M430V2 (Apr05) RMA Clean" - ], - [ - "SA_M2_0405_PC", - "HBP Rosen Striatum M430V2 (Apr05) PDNN Clean" - ], - [ - "SA_M2_0405_SS", - "HBP Rosen Striatum M430V2 (Apr05) SScore" - ], - [ - "SA_M2_0405_RR", - "HBP Rosen Striatum M430V2 (Apr05) RMA Orig" - ], - [ - "Striatum_Exon_0209", - "HQF Striatum Exon (Feb09) RMA" - ], - [ - "DevStriatum_ILM6.2P3RInv_1110", - "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **" - ], - [ - "DevStriatum_ILM6.2P14RInv_1110", - "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov10) RankInv **" ] ], "Temporal Cerebral Wall": [ @@ -1250,26 +558,6 @@ "Macaca-fasicularis": { "Amygdala": [ [ - "KIN_YSM_AMY_0711", - "KIN/YSM Human AMY Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "INIA_AmgCoh_0311", - "INIA Amygdala Cohort Affy MoGene 1.0 ST (Mar11) RMA" - ], - [ - "INIA_Amg_BLA_RMA_1110", - "INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA" - ], - [ - "INIA_Amg_BLA_RMA_M_1110", - "INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA Male" - ], - [ - "INIA_Amg_BLA_RMA_F_1110", - "INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA Female" - ], - [ "INIA_MacFas_AMGc_RMA_0110", "INIA Macaca fasicularis Amygdala control (Jan10) RMA **" ], @@ -1280,132 +568,8 @@ ], "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ - "GSE15222_F_A_RI_0409", - "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA_N_0709", - "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" - ], - [ - "GSE5281_F_RMA_Alzh_0709", - "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" - ], - [ "INIA_MacFas_brain_RMA_0110", "INIA Macaca fasicularis Brain (Jan10) RMA **" - ], - [ - "GSE15222_F_RI_0409", - "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA0709", - "GSE5281 Human Brain Full Liang (Jul09) RMA" - ], - [ - "GSE5281_RMA0709", - "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_MALE", - "UCLA CTB6B6CTF2 Brain Male mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ - "UCLA_BHF2_BRAIN_FEMALE", - "UCLA BHF2 Brain Female mlratio" - ], - [ - "UCLA_BHHBF2_BRAIN_FEMALE", - "UCLA BHHBF2 Brain Female Only" - ], - [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ - "UCLA_BHHBF2_BRAIN_2005", - "UCLA BHHBF2 Brain (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_2005", - "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_0605", - "UCLA BHF2 Brain (June05) mlratio" - ], - [ - "BR_M2_1106_R", - "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" - ], - [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ - "BR_U_1105_P", - "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" - ], - [ - "BR_U_0805_M", - "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" - ], - [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ - "BR_U_0805_R", - "UTHSC Brain mRNA U74Av2 (Aug05) RMA" - ], - [ - "BRF2_M_0805_R", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" - ], - [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" - ], - [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" - ], - [ - "BRF2_M_0304_M", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" - ], - [ - "CB_M_0204_P", - "INIA Brain mRNA M430 (Feb04) PDNN" ] ], "Genotypes": [ @@ -1416,124 +580,12 @@ ], "Hippocampus": [ [ - "KIN_YSM_HIP_0711", - "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ - "HC_M2_0606_MDP", - "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ - "OXUKHS_ILMHipp_RI0510", - "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ "INIA_MacFas_Hc_RMA_0110", "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" ], [ "INIA_MacFas_He_RMA_0110", "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ - "UT_HippRatEx_RMA_0709", - "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ - "Illum_LXS_Hipp_loess0807", - "Hippocampus Illumina (Aug07) LOESS" - ], - [ - "Illum_LXS_Hipp_loess_nb0807", - "Hippocampus Illumina (Aug07) LOESS_NB" - ], - [ - "Illum_LXS_Hipp_quant0807", - "Hippocampus Illumina (Aug07) QUANT" - ], - [ - "Illum_LXS_Hipp_quant_nb0807", - "Hippocampus Illumina (Aug07) QUANT_NB" - ], - [ - "Illum_LXS_Hipp_rsn0807", - "Hippocampus Illumina (Aug07) RSN" - ], - [ - "Illum_LXS_Hipp_rsn_nb0807", - "Hippocampus Illumina (Aug07) RSN_NB" - ], - [ - "Hipp_Illumina_RankInv_0507", - "Hippocampus Illumina (May07) RankInv" - ], - [ - "HC_M2_0606_P", - "Hippocampus Consortium M430v2 (Jun06) PDNN" - ], - [ - "HC_M2_0606_M", - "Hippocampus Consortium M430v2 (Jun06) MAS5" - ], - [ - "HC_M2_0606_R", - "Hippocampus Consortium M430v2 (Jun06) RMA" - ], - [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ - "HC_M2CB_1205_P", - "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ - "UMUTAffyExon_0209_RMA", - "UMUTAffy Hippocampus Exon (Feb09) RMA" - ], - [ - "UT_ILM_BXD_hipp_NON_0909", - "UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOS_0909", - "UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOE_0909", - "UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSS_0909", - "UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSE_0909", - "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOE_1008", - "Hippocampus Illumina NOE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSS_1008", - "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Nucleus Accumbens": [ @@ -1544,18 +596,6 @@ [ "INIA_MacFas_Ae_RMA_0110", "INIA Macaca fasicularis Nucleus Accumbens ethanol (Jan10) RMA **" - ], - [ - "VCUSalo_1007_R", - "VCU BXD NA Sal M430 2.0 (Oct07) RMA" - ], - [ - "VCUEtOH_1007_R", - "VCU BXD NA EtOH M430 2.0 (Oct07) RMA **" - ], - [ - "VCUSal_1007_R", - "VCU BXD NA Et vs Sal M430 2.0 (Oct07) Sscore **" ] ], "Phenotypes": [ @@ -1566,64 +606,12 @@ ], "Prefrontal Cortex": [ [ - "HBTRC-MLPFC_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_N_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent Normal (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_AD_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent AD (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_HD_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent HD (Jun11) mlratio" - ], - [ "INIA_MacFas_Pf_RMA_0110", "INIA Macaca fasicularis Prefrontal Cortex control (Jan10) RMA **" ], [ "INIA_MacFas_PfE_RMA_0110", "INIA Macaca fasicularis Prefrontal Cortex ethanol (Jan10) RMA **" - ], - [ - "VCUSal_1006_R", - "VCU BXD PFC Et vs Sal M430 2.0 (Dec06) Sscore" - ], - [ - "VCUEtOH_1206_R", - "VCU BXD PFC EtOH M430 2.0 (Dec06) RMA" - ], - [ - "VCUSal_1206_R", - "VCU BXD PFC Sal M430 2.0 (Dec06) RMA" - ], - [ - "VCU_PF_Air_0111_R", - "VCU BXD PFC CIE Air M430 2.0 (Jan11) RMA **" - ], - [ - "VCU_PF_Et_0111_R", - "VCU BXD PFC CIE EtOH M430 2.0 (Jan11) RMA **" - ], - [ - "VCU_PF_AvE_0111_Ss", - "VCU BXD PFC EtOH vs CIE Air M430 2.0 (Jan11) Sscore **" - ], - [ - "VCUEt_vs_Sal_0806_R", - "VCU LXS PFC Et vs Sal M430A 2.0 (Aug06) Sscore **" - ], - [ - "VCUEtOH_0806_R", - "VCU LXS PFC EtOH M430A 2.0 (Aug06) RMA **" - ], - [ - "VCUSal_0806_R", - "VCU LXS PFC Sal M430A 2.0 (Aug06) RMA" ] ] } @@ -1638,10 +626,6 @@ ], "Mammary Tumors": [ [ - "NCI_Mam_Tum_RMA_0409", - "NCI Mammary M430v2 (Apr09) RMA" - ], - [ "NCI_Agil_Mam_Tum_RMA_0409", "NCI Mammary LMT miRNA v2 (Apr09) RMA" ], @@ -1666,38 +650,6 @@ [ "Eye_AXBXA_1008_RankInv", "Eye AXBXA Illumina V6.2(Oct08) RankInv Beta" - ], - [ - "Eye_M2_0908_R", - "Eye M430v2 (Sep08) RMA" - ], - [ - "Eye_M2_0908_R_NB", - "Eye M430v2 Mutant Gpnmb (Sep08) RMA **" - ], - [ - "Eye_M2_0908_R_ND", - "Eye M430v2 WT Gpnmb (Sep08) RMA **" - ], - [ - "Eye_M2_0908_WTWT", - "Eye M430v2 WT WT (Sep08) RMA **" - ], - [ - "Eye_M2_0908_R_WT", - "Eye M430v2 WT Tyrp1 (Sep08) RMA **" - ], - [ - "Eye_M2_0908_R_MT", - "Eye M430v2 Mutant Tyrp1 (Sep08) RMA **" - ], - [ - "BXD_GLA_0911", - "BXD Glaucoma Affy M430 2.0 Trial (Sep11) RMA **" - ], - [ - "UIOWA_Eye_RMA_0906", - "UIOWA Eye mRNA RAE230v2 (Sep06) RMA" ] ], "Genotypes": [ @@ -1722,128 +674,12 @@ ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ "LVF2_M_0704_R", "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" ], [ "LVF2_M_0704_M", "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Phenotypes": [ @@ -1856,118 +692,18 @@ "B6D2F2": { "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ - "GSE15222_F_A_RI_0409", - "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA_N_0709", - "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" - ], - [ - "GSE5281_F_RMA_Alzh_0709", - "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" - ], - [ - "INIA_MacFas_brain_RMA_0110", - "INIA Macaca fasicularis Brain (Jan10) RMA **" - ], - [ - "GSE15222_F_RI_0409", - "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA0709", - "GSE5281 Human Brain Full Liang (Jul09) RMA" - ], - [ - "GSE5281_RMA0709", - "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_MALE", - "UCLA CTB6B6CTF2 Brain Male mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ - "UCLA_BHF2_BRAIN_FEMALE", - "UCLA BHF2 Brain Female mlratio" - ], - [ - "UCLA_BHHBF2_BRAIN_FEMALE", - "UCLA BHHBF2 Brain Female Only" - ], - [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ - "UCLA_BHHBF2_BRAIN_2005", - "UCLA BHHBF2 Brain (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_2005", - "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_0605", - "UCLA BHF2 Brain (June05) mlratio" - ], - [ - "BR_M2_1106_R", - "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" - ], - [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ - "BR_U_1105_P", - "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" - ], - [ - "BR_U_0805_M", - "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" - ], - [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ - "BR_U_0805_R", - "UTHSC Brain mRNA U74Av2 (Aug05) RMA" - ], - [ "BRF2_M_0805_R", "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" ], [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ "BRF2_M_0805_M", "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" ], [ + "BRF2_M_0805_P", + "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" + ], + [ "BRF2_M_0304_P", "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" ], @@ -1978,10 +714,6 @@ [ "BRF2_M_0304_M", "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" - ], - [ - "CB_M_0204_P", - "INIA Brain mRNA M430 (Feb04) PDNN" ] ], "Genotypes": [ @@ -2006,128 +738,8 @@ ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ "UCLA_BDF2_LIVER_1999", "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Phenotypes": [ @@ -2152,76 +764,16 @@ ], "Striatum": [ [ - "DevStriatum_ILM6.2P3RInv_1111", - "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov11) RankInv **" - ], - [ - "DevStriatum_ILM6.2P14RInv_1111", - "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov11) RankInv **" - ], - [ - "KIN_YSM_STR_0711", - "KIN/YSM Human STR Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "OHSU_HS-CC_ILMStr_0211", - "OHSU HS-CC Striatum ILM6v1 (Feb11) RankInv" - ], - [ - "UTHSC_Striatum_RankInv_1210", - "HQF BXD Striatum ILM6.1 (Dec10v2) RankInv" - ], - [ - "UTHSC_Str_RankInv_1210", - "HQF BXD Striatum ILM6.1 (Dec10) RankInv" - ], - [ - "UTHSC_1107_RankInv", - "HQF BXD Striatum ILM6.1 (Nov07) RankInv" - ], - [ - "SA_M2_0905_P", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN" - ], - [ - "SA_M2_0905_M", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5" - ], - [ "SA_M2_0905_R", "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA" ], [ - "SA_M2_0405_MC", - "HBP Rosen Striatum M430V2 (Apr05) MAS5 Clean" - ], - [ - "SA_M2_0405_RC", - "HBP Rosen Striatum M430V2 (Apr05) RMA Clean" - ], - [ - "SA_M2_0405_PC", - "HBP Rosen Striatum M430V2 (Apr05) PDNN Clean" - ], - [ - "SA_M2_0405_SS", - "HBP Rosen Striatum M430V2 (Apr05) SScore" - ], - [ - "SA_M2_0405_RR", - "HBP Rosen Striatum M430V2 (Apr05) RMA Orig" - ], - [ - "Striatum_Exon_0209", - "HQF Striatum Exon (Feb09) RMA" - ], - [ - "DevStriatum_ILM6.2P3RInv_1110", - "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **" + "SA_M2_0905_M", + "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5" ], [ - "DevStriatum_ILM6.2P14RInv_1110", - "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov10) RankInv **" + "SA_M2_0905_P", + "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN" ] ] }, @@ -2232,80 +784,16 @@ "UCLA BHF2 Adipose Male mlratio" ], [ - "UCLA_CTB6B6CTF2_ADIPOSE_MALE", - "UCLA CTB6B6CTF2 Adipose Male mlratio **" - ], - [ "UCLA_BHF2_ADIPOSE_FEMALE", "UCLA BHF2 Adipose Female mlratio" ], [ - "UCLA_CTB6B6CTF2_ADIPOSE_FEMALE", - "UCLA CTB6B6CTF2 Adipose Female mlratio **" - ], - [ - "UCLA_BHHBF2_ADIPOSE_MALE", - "UCLA BHHBF2 Adipose Male Only" - ], - [ - "UCLA_BHHBF2_ADIPOSE_FEMALE", - "UCLA BHHBF2 Adipose Female Only" - ], - [ - "UCLA_BHHBF2_ADIPOSE_2005", - "UCLA BHHBF2 Adipose (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_ADIPOSE_2005", - "UCLA CTB6/B6CTF2 Adipose (2005) mlratio **" - ], - [ "UCLA_BHF2_ADIPOSE_0605", "UCLA BHF2 Adipose (June05) mlratio" ] ], "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ - "GSE15222_F_A_RI_0409", - "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA_N_0709", - "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" - ], - [ - "GSE5281_F_RMA_Alzh_0709", - "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" - ], - [ - "INIA_MacFas_brain_RMA_0110", - "INIA Macaca fasicularis Brain (Jan10) RMA **" - ], - [ - "GSE15222_F_RI_0409", - "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA0709", - "GSE5281 Human Brain Full Liang (Jul09) RMA" - ], - [ - "GSE5281_RMA0709", - "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_MALE", - "UCLA CTB6B6CTF2 Brain Male mlratio **" - ], - [ "UCLA_BHF2_BRAIN_MALE", "UCLA BHF2 Brain Male mlratio" ], @@ -2314,84 +802,8 @@ "UCLA BHF2 Brain Female mlratio" ], [ - "UCLA_BHHBF2_BRAIN_FEMALE", - "UCLA BHHBF2 Brain Female Only" - ], - [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ - "UCLA_BHHBF2_BRAIN_2005", - "UCLA BHHBF2 Brain (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_2005", - "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ "UCLA_BHF2_BRAIN_0605", "UCLA BHF2 Brain (June05) mlratio" - ], - [ - "BR_M2_1106_R", - "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" - ], - [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ - "BR_U_1105_P", - "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" - ], - [ - "BR_U_0805_M", - "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" - ], - [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ - "BR_U_0805_R", - "UTHSC Brain mRNA U74Av2 (Aug05) RMA" - ], - [ - "BRF2_M_0805_R", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" - ], - [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" - ], - [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" - ], - [ - "BRF2_M_0304_M", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" - ], - [ - "CB_M_0204_P", - "INIA Brain mRNA M430 (Feb04) PDNN" ] ], "Genotypes": [ @@ -2402,160 +814,20 @@ ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ "UCLA_BHF2_LIVER_MALE", "UCLA BHF2 Liver Male mlratio" ], [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ "UCLA_BHF2_LIVER_FEMALE", "UCLA BHF2 Liver Female mlratio" ], [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ "UCLA_BHF2_LIVER_0605", "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Muscle": [ [ - "EPFLMouseMuscleRMA1211", - "EPFL/LISP BXD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "EPFLMouseMuscleCDRMA1211", - "EPFL/LISP BXD CD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "EPFLMouseMuscleHFDRMA1211", - "EPFL/LISP BXD HFD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_FEMALE", - "UCLA CTB6B6CTF2 Muscle Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_MALE", - "UCLA CTB6B6CTF2 Muscle Male mlratio **" - ], - [ - "UCLA_BHHBF2_MUSCLE_FEMALE", - "UCLA BHHBF2 Muscle Female Only" - ], - [ - "UCLA_BHHBF2_MUSCLE_MALE", - "UCLA BHHBF2 Muscle Male Only" - ], - [ "UCLA_BHF2_MUSCLE_MALE", "UCLA BHF2 Muscle Male mlratio **" ], @@ -2564,14 +836,6 @@ "UCLA BHF2 Muscle Female mlratio **" ], [ - "UCLA_BHHBF2_MUSCLE_2005", - "UCLA BHHBF2 Muscle (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_2005", - "UCLA CTB6/B6CTF2 Muscle (2005) mlratio **" - ], - [ "UCLA_BHF2_MUSCLE_0605", "UCLA BHF2 Muscle (June05) mlratio **" ] @@ -2586,22 +850,6 @@ "BHHBF2": { "Adipose": [ [ - "UCLA_BHF2_ADIPOSE_MALE", - "UCLA BHF2 Adipose Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_ADIPOSE_MALE", - "UCLA CTB6B6CTF2 Adipose Male mlratio **" - ], - [ - "UCLA_BHF2_ADIPOSE_FEMALE", - "UCLA BHF2 Adipose Female mlratio" - ], - [ - "UCLA_CTB6B6CTF2_ADIPOSE_FEMALE", - "UCLA CTB6B6CTF2 Adipose Female mlratio **" - ], - [ "UCLA_BHHBF2_ADIPOSE_MALE", "UCLA BHHBF2 Adipose Male Only" ], @@ -2612,144 +860,20 @@ [ "UCLA_BHHBF2_ADIPOSE_2005", "UCLA BHHBF2 Adipose (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_ADIPOSE_2005", - "UCLA CTB6/B6CTF2 Adipose (2005) mlratio **" - ], - [ - "UCLA_BHF2_ADIPOSE_0605", - "UCLA BHF2 Adipose (June05) mlratio" ] ], "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ - "GSE15222_F_A_RI_0409", - "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA_N_0709", - "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" - ], - [ - "GSE5281_F_RMA_Alzh_0709", - "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" - ], - [ - "INIA_MacFas_brain_RMA_0110", - "INIA Macaca fasicularis Brain (Jan10) RMA **" - ], - [ - "GSE15222_F_RI_0409", - "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA0709", - "GSE5281 Human Brain Full Liang (Jul09) RMA" - ], - [ - "GSE5281_RMA0709", - "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_MALE", - "UCLA CTB6B6CTF2 Brain Male mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ - "UCLA_BHF2_BRAIN_FEMALE", - "UCLA BHF2 Brain Female mlratio" + "UCLA_BHHBF2_BRAIN_MALE", + "UCLA BHHBF2 Brain Male Only" ], [ "UCLA_BHHBF2_BRAIN_FEMALE", "UCLA BHHBF2 Brain Female Only" ], [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ "UCLA_BHHBF2_BRAIN_2005", "UCLA BHHBF2 Brain (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_2005", - "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_0605", - "UCLA BHF2 Brain (June05) mlratio" - ], - [ - "BR_M2_1106_R", - "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" - ], - [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ - "BR_U_1105_P", - "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" - ], - [ - "BR_U_0805_M", - "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" - ], - [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ - "BR_U_0805_R", - "UTHSC Brain mRNA U74Av2 (Aug05) RMA" - ], - [ - "BRF2_M_0805_R", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" - ], - [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" - ], - [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" - ], - [ - "BRF2_M_0304_M", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" - ], - [ - "CB_M_0204_P", - "INIA Brain mRNA M430 (Feb04) PDNN" ] ], "Genotypes": [ @@ -2760,178 +884,30 @@ ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ "UCLA_BHHBF2_LIVER_MALE", "UCLA BHHBF2 Liver Male Only" ], [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" + "UCLA_BHHBF2_LIVER_FEMALE", + "UCLA BHHBF2 Liver Female Only" ], [ "UCLA_BHHBF2_LIVER_2005", "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Muscle": [ [ - "EPFLMouseMuscleRMA1211", - "EPFL/LISP BXD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "EPFLMouseMuscleCDRMA1211", - "EPFL/LISP BXD CD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "EPFLMouseMuscleHFDRMA1211", - "EPFL/LISP BXD HFD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_FEMALE", - "UCLA CTB6B6CTF2 Muscle Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_MALE", - "UCLA CTB6B6CTF2 Muscle Male mlratio **" - ], - [ - "UCLA_BHHBF2_MUSCLE_FEMALE", - "UCLA BHHBF2 Muscle Female Only" - ], - [ "UCLA_BHHBF2_MUSCLE_MALE", "UCLA BHHBF2 Muscle Male Only" ], [ - "UCLA_BHF2_MUSCLE_MALE", - "UCLA BHF2 Muscle Male mlratio **" - ], - [ - "UCLA_BHF2_MUSCLE_FEMALE", - "UCLA BHF2 Muscle Female mlratio **" + "UCLA_BHHBF2_MUSCLE_FEMALE", + "UCLA BHHBF2 Muscle Female Only" ], [ "UCLA_BHHBF2_MUSCLE_2005", "UCLA BHHBF2 Muscle (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_2005", - "UCLA CTB6/B6CTF2 Muscle (2005) mlratio **" - ], - [ - "UCLA_BHF2_MUSCLE_0605", - "UCLA BHF2 Muscle (June05) mlratio **" ] ], "Phenotypes": [ @@ -2944,10 +920,6 @@ "BXD": { "Amygdala": [ [ - "KIN_YSM_AMY_0711", - "KIN/YSM Human AMY Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ "INIA_AmgCoh_0311", "INIA Amygdala Cohort Affy MoGene 1.0 ST (Mar11) RMA" ], @@ -2962,102 +934,14 @@ [ "INIA_Amg_BLA_RMA_F_1110", "INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA Female" - ], - [ - "INIA_MacFas_AMGc_RMA_0110", - "INIA Macaca fasicularis Amygdala control (Jan10) RMA **" - ], - [ - "INIA_MacFas_AMGe_RMA_0110", - "INIA Macaca fasicularis Amygdala ethanol (Jan10) RMA **" ] ], "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ - "GSE15222_F_A_RI_0409", - "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA_N_0709", - "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" - ], - [ - "GSE5281_F_RMA_Alzh_0709", - "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" - ], - [ - "INIA_MacFas_brain_RMA_0110", - "INIA Macaca fasicularis Brain (Jan10) RMA **" - ], - [ - "GSE15222_F_RI_0409", - "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA0709", - "GSE5281 Human Brain Full Liang (Jul09) RMA" - ], - [ - "GSE5281_RMA0709", - "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_MALE", - "UCLA CTB6B6CTF2 Brain Male mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ - "UCLA_BHF2_BRAIN_FEMALE", - "UCLA BHF2 Brain Female mlratio" - ], - [ - "UCLA_BHHBF2_BRAIN_FEMALE", - "UCLA BHHBF2 Brain Female Only" - ], - [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ - "UCLA_BHHBF2_BRAIN_2005", - "UCLA BHHBF2 Brain (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_2005", - "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_0605", - "UCLA BHF2 Brain (June05) mlratio" - ], - [ "BR_M2_1106_R", "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" ], [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ "BR_U_1105_P", "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" ], @@ -3066,36 +950,12 @@ "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" ], [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ "BR_U_0805_R", "UTHSC Brain mRNA U74Av2 (Aug05) RMA" ], [ - "BRF2_M_0805_R", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" - ], - [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" - ], - [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" - ], - [ - "BRF2_M_0304_M", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" + "BR_U_0805_P", + "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" ], [ "CB_M_0204_P", @@ -3108,76 +968,24 @@ "UCLA BXD and BXH Cartilage v2" ], [ - "UCLA_BXHBXD_CARTILAGE_V2", - "UCLA BXH and BXD Cartilage v2" - ], - [ "UCLA_BXDBXH_CARTILAGE", "UCLA BXD and BXH Cartilage" ], [ - "UCLA_BXHBXD_CARTILAGE", - "UCLA BXH and BXD Cartilage" - ], - [ "UCLA_BXD_CARTILAGE", "UCLA BXD Cartilage" - ], - [ - "UCLA_BXH_CARTILAGE", - "UCLA BXH Cartilage" ] ], "Cerebellum": [ [ - "HBTRC-MLC_0611", - "HBTRC-MLC Human Cerebellum Agilent (Jun11) mlratio" - ], - [ - "HBTRC-MLC_N_0611", - "HBTRC-MLC Human Cerebellum Agilent Normal (Jun11) mlratio" - ], - [ - "HBTRC-MLC_AD_0611", - "HBTRC-MLC Human Cerebellum Agilent AD (Jun11) mlratio" - ], - [ - "HBTRC-MLC_HD_0611", - "HBTRC-MLC Human Cerebellum Agilent HD (Jun11) mlratio" - ], - [ - "GCB_M2_0505_M", - "GE-NIAAA Cerebellum mRNA M430v2 (May05) MAS5" - ], - [ - "GCB_M2_0505_R", - "GE-NIAAA Cerebellum mRNA M430v2 (May05) RMA" - ], - [ - "GCB_M2_0505_P", - "GE-NIAAA Cerebellum mRNA M430v2 (May05) PDNN" - ], - [ - "CB_M_0305_R", - "SJUT Cerebellum mRNA M430 (Mar05) RMA" - ], - [ - "CB_M_0305_M", - "SJUT Cerebellum mRNA M430 (Mar05) MAS5" - ], - [ - "CB_M_0305_P", - "SJUT Cerebellum mRNA M430 (Mar05) PDNN" + "CB_M_1004_M", + "SJUT Cerebellum mRNA M430 (Oct04) MAS5" ], [ "CB_M_1004_R", "SJUT Cerebellum mRNA M430 (Oct04) RMA" ], [ - "CB_M_1004_M", - "SJUT Cerebellum mRNA M430 (Oct04) MAS5" - ], - [ "CB_M_1004_P", "SJUT Cerebellum mRNA M430 (Oct04) PDNN" ], @@ -3188,10 +996,6 @@ ], "Eye": [ [ - "Eye_AXBXA_1008_RankInv", - "Eye AXBXA Illumina V6.2(Oct08) RankInv Beta" - ], - [ "Eye_M2_0908_R", "Eye M430v2 (Sep08) RMA" ], @@ -3204,24 +1008,20 @@ "Eye M430v2 WT Gpnmb (Sep08) RMA **" ], [ - "Eye_M2_0908_WTWT", - "Eye M430v2 WT WT (Sep08) RMA **" - ], - [ "Eye_M2_0908_R_WT", "Eye M430v2 WT Tyrp1 (Sep08) RMA **" ], [ + "Eye_M2_0908_WTWT", + "Eye M430v2 WT WT (Sep08) RMA **" + ], + [ "Eye_M2_0908_R_MT", "Eye M430v2 Mutant Tyrp1 (Sep08) RMA **" ], [ "BXD_GLA_0911", "BXD Glaucoma Affy M430 2.0 Trial (Sep11) RMA **" - ], - [ - "UIOWA_Eye_RMA_0906", - "UIOWA Eye mRNA RAE230v2 (Sep06) RMA" ] ], "Genotypes": [ @@ -3270,62 +1070,6 @@ ], "Hippocampus": [ [ - "KIN_YSM_HIP_0711", - "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ - "HC_M2_0606_MDP", - "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ - "OXUKHS_ILMHipp_RI0510", - "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ - "INIA_MacFas_Hc_RMA_0110", - "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" - ], - [ - "INIA_MacFas_He_RMA_0110", - "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ - "UT_HippRatEx_RMA_0709", - "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ - "Illum_LXS_Hipp_loess0807", - "Hippocampus Illumina (Aug07) LOESS" - ], - [ - "Illum_LXS_Hipp_loess_nb0807", - "Hippocampus Illumina (Aug07) LOESS_NB" - ], - [ - "Illum_LXS_Hipp_quant0807", - "Hippocampus Illumina (Aug07) QUANT" - ], - [ - "Illum_LXS_Hipp_quant_nb0807", - "Hippocampus Illumina (Aug07) QUANT_NB" - ], - [ - "Illum_LXS_Hipp_rsn0807", - "Hippocampus Illumina (Aug07) RSN" - ], - [ - "Illum_LXS_Hipp_rsn_nb0807", - "Hippocampus Illumina (Aug07) RSN_NB" - ], - [ - "Hipp_Illumina_RankInv_0507", - "Hippocampus Illumina (May07) RankInv" - ], - [ "HC_M2_0606_P", "Hippocampus Consortium M430v2 (Jun06) PDNN" ], @@ -3338,14 +1082,6 @@ "Hippocampus Consortium M430v2 (Jun06) RMA" ], [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ - "HC_M2CB_1205_P", - "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ "UMUTAffyExon_0209_RMA", "UMUTAffy Hippocampus Exon (Feb09) RMA" ], @@ -3368,26 +1104,6 @@ [ "UT_ILM_BXD_hipp_RSE_0909", "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOE_1008", - "Hippocampus Illumina NOE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSS_1008", - "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Hypothalamus": [ @@ -3428,18 +1144,6 @@ [ "MA_M2_0706_R", "Mouse Kidney M430v2 (Jul06) RMA" - ], - [ - "KI_2A_0405_M", - "MDC/CAS/ICL Kidney 230A (Apr05) MAS5" - ], - [ - "KI_2A_0405_Rz", - "MDC/CAS/ICL Kidney 230A (Apr05) RMA 2z+8" - ], - [ - "KI_2A_0405_R", - "MDC/CAS/ICL Kidney 230A (Apr05) RMA" ] ], "Leucocytes": [ @@ -3454,38 +1158,6 @@ "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" ], [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ "GenEx_BXD_liverSal_RMA_F_0211", "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" ], @@ -3512,74 +1184,10 @@ [ "SUH_Liv_RMA_0611", "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Lung": [ [ - "OXUKHS_ILMLung_RI0510", - "OX UK HS ILM6v1.1 Lung (May 2010) RankInv" - ], - [ "HZI_0408_R", "HZI Lung M430v2 (Apr08) RMA" ], @@ -3600,48 +1208,12 @@ "EPFL/LISP BXD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" ], [ - "EPFLMouseMuscleCDRMA1211", - "EPFL/LISP BXD CD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ "EPFLMouseMuscleHFDRMA1211", "EPFL/LISP BXD HFD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" ], [ - "UCLA_CTB6B6CTF2_MUSCLE_FEMALE", - "UCLA CTB6B6CTF2 Muscle Female mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_MALE", - "UCLA CTB6B6CTF2 Muscle Male mlratio **" - ], - [ - "UCLA_BHHBF2_MUSCLE_FEMALE", - "UCLA BHHBF2 Muscle Female Only" - ], - [ - "UCLA_BHHBF2_MUSCLE_MALE", - "UCLA BHHBF2 Muscle Male Only" - ], - [ - "UCLA_BHF2_MUSCLE_MALE", - "UCLA BHF2 Muscle Male mlratio **" - ], - [ - "UCLA_BHF2_MUSCLE_FEMALE", - "UCLA BHF2 Muscle Female mlratio **" - ], - [ - "UCLA_BHHBF2_MUSCLE_2005", - "UCLA BHHBF2 Muscle (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_2005", - "UCLA CTB6/B6CTF2 Muscle (2005) mlratio **" - ], - [ - "UCLA_BHF2_MUSCLE_0605", - "UCLA BHF2 Muscle (June05) mlratio **" + "EPFLMouseMuscleCDRMA1211", + "EPFL/LISP BXD CD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" ] ], "Neocortex": [ @@ -3676,14 +1248,6 @@ ], "Nucleus Accumbens": [ [ - "INIA_MacFas_Ac_RMA_0110", - "INIA Macaca fasicularis Nucleus Accumbens control (Jan10) RMA **" - ], - [ - "INIA_MacFas_Ae_RMA_0110", - "INIA Macaca fasicularis Nucleus Accumbens ethanol (Jan10) RMA **" - ], - [ "VCUSalo_1007_R", "VCU BXD NA Sal M430 2.0 (Oct07) RMA" ], @@ -3704,34 +1268,6 @@ ], "Prefrontal Cortex": [ [ - "HBTRC-MLPFC_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_N_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent Normal (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_AD_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent AD (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_HD_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent HD (Jun11) mlratio" - ], - [ - "INIA_MacFas_Pf_RMA_0110", - "INIA Macaca fasicularis Prefrontal Cortex control (Jan10) RMA **" - ], - [ - "INIA_MacFas_PfE_RMA_0110", - "INIA Macaca fasicularis Prefrontal Cortex ethanol (Jan10) RMA **" - ], - [ - "VCUSal_1006_R", - "VCU BXD PFC Et vs Sal M430 2.0 (Dec06) Sscore" - ], - [ "VCUEtOH_1206_R", "VCU BXD PFC EtOH M430 2.0 (Dec06) RMA" ], @@ -3740,6 +1276,10 @@ "VCU BXD PFC Sal M430 2.0 (Dec06) RMA" ], [ + "VCUSal_1006_R", + "VCU BXD PFC Et vs Sal M430 2.0 (Dec06) Sscore" + ], + [ "VCU_PF_Air_0111_R", "VCU BXD PFC CIE Air M430 2.0 (Jan11) RMA **" ], @@ -3750,18 +1290,6 @@ [ "VCU_PF_AvE_0111_Ss", "VCU BXD PFC EtOH vs CIE Air M430 2.0 (Jan11) Sscore **" - ], - [ - "VCUEt_vs_Sal_0806_R", - "VCU LXS PFC Et vs Sal M430A 2.0 (Aug06) Sscore **" - ], - [ - "VCUEtOH_0806_R", - "VCU LXS PFC EtOH M430A 2.0 (Aug06) RMA **" - ], - [ - "VCUSal_0806_R", - "VCU LXS PFC Sal M430A 2.0 (Aug06) RMA" ] ], "Retina": [ @@ -3778,6 +1306,10 @@ "ONC Retina Illumina V6.2 (Apr12) RankInv **" ], [ + "HEIONCvsCRetILM6_0911", + "HEI ONC vs Control Retina Illumina V6.2 (Sep11) RankInv **" + ], + [ "G2HEIONCRetILM6_0911", "G2 HEI ONC Retina Illumina V6.2 (Sep11) RankInv **" ], @@ -3786,10 +1318,6 @@ "HEI ONC Retina Illumina V6.2 (Sep11) RankInv **" ], [ - "HEIONCvsCRetILM6_0911", - "HEI ONC vs Control Retina Illumina V6.2 (Sep11) RankInv **" - ], - [ "ILM_Retina_BXD_F_RankInv1210", "HEI Retina Females Illumina V6.2 (Dec10) RankInv **" ], @@ -3826,10 +1354,6 @@ [ "UTK_BXDSpl_VST_0110", "UTK Spleen ILM6.1 (Jan10) VST" - ], - [ - "STSPL_1107_R", - "Stuart Spleen M430v2 (Nov07) RMA" ] ], "Striatum": [ @@ -3842,14 +1366,6 @@ "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov11) RankInv **" ], [ - "KIN_YSM_STR_0711", - "KIN/YSM Human STR Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "OHSU_HS-CC_ILMStr_0211", - "OHSU HS-CC Striatum ILM6v1 (Feb11) RankInv" - ], - [ "UTHSC_Striatum_RankInv_1210", "HQF BXD Striatum ILM6.1 (Dec10v2) RankInv" ], @@ -3862,18 +1378,6 @@ "HQF BXD Striatum ILM6.1 (Nov07) RankInv" ], [ - "SA_M2_0905_P", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN" - ], - [ - "SA_M2_0905_M", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5" - ], - [ - "SA_M2_0905_R", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA" - ], - [ "SA_M2_0405_MC", "HBP Rosen Striatum M430V2 (Apr05) MAS5 Clean" ], @@ -3898,12 +1402,12 @@ "HQF Striatum Exon (Feb09) RMA" ], [ - "DevStriatum_ILM6.2P3RInv_1110", - "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **" - ], - [ "DevStriatum_ILM6.2P14RInv_1110", "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov10) RankInv **" + ], + [ + "DevStriatum_ILM6.2P3RInv_1110", + "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **" ] ], "T Cell (helper)": [ @@ -3926,42 +1430,30 @@ ], "Ventral Tegmental Area": [ [ - "VCUEtvsSal_0609_R", - "VCU BXD VTA Et vs Sal M430 2.0 (Jun09) Sscore **" - ], - [ "VCUEtOH_0609_R", "VCU BXD VTA EtOH M430 2.0 (Jun09) RMA **" ], [ "VCUSal_0609_R", "VCU BXD VTA Sal M430 2.0 (Jun09) RMA **" + ], + [ + "VCUEtvsSal_0609_R", + "VCU BXD VTA Et vs Sal M430 2.0 (Jun09) Sscore **" ] ] }, "BXH": { "Cartilage": [ [ - "UCLA_BXDBXH_CARTILAGE_V2", - "UCLA BXD and BXH Cartilage v2" - ], - [ "UCLA_BXHBXD_CARTILAGE_V2", "UCLA BXH and BXD Cartilage v2" ], [ - "UCLA_BXDBXH_CARTILAGE", - "UCLA BXD and BXH Cartilage" - ], - [ "UCLA_BXHBXD_CARTILAGE", "UCLA BXH and BXD Cartilage" ], [ - "UCLA_BXD_CARTILAGE", - "UCLA BXD Cartilage" - ], - [ "UCLA_BXH_CARTILAGE", "UCLA BXH Cartilage" ] @@ -3982,170 +1474,30 @@ "CTB6F2": { "Adipose": [ [ - "UCLA_BHF2_ADIPOSE_MALE", - "UCLA BHF2 Adipose Male mlratio" - ], - [ "UCLA_CTB6B6CTF2_ADIPOSE_MALE", "UCLA CTB6B6CTF2 Adipose Male mlratio **" ], [ - "UCLA_BHF2_ADIPOSE_FEMALE", - "UCLA BHF2 Adipose Female mlratio" - ], - [ "UCLA_CTB6B6CTF2_ADIPOSE_FEMALE", "UCLA CTB6B6CTF2 Adipose Female mlratio **" ], [ - "UCLA_BHHBF2_ADIPOSE_MALE", - "UCLA BHHBF2 Adipose Male Only" - ], - [ - "UCLA_BHHBF2_ADIPOSE_FEMALE", - "UCLA BHHBF2 Adipose Female Only" - ], - [ - "UCLA_BHHBF2_ADIPOSE_2005", - "UCLA BHHBF2 Adipose (2005) mlratio **" - ], - [ "UCLA_CTB6B6CTF2_ADIPOSE_2005", "UCLA CTB6/B6CTF2 Adipose (2005) mlratio **" - ], - [ - "UCLA_BHF2_ADIPOSE_0605", - "UCLA BHF2 Adipose (June05) mlratio" ] ], "Brain": [ [ - "GSE15222_F_N_RI_0409", - "GSE15222 Human Brain Normal Myers (Apr09) RankInv" - ], - [ - "GSE15222_F_A_RI_0409", - "GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA_N_0709", - "GSE5281 Human Brain Normal Full Liang (Jul09) RMA" - ], - [ - "GSE5281_F_RMA_Alzh_0709", - "GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA" - ], - [ - "INIA_MacFas_brain_RMA_0110", - "INIA Macaca fasicularis Brain (Jan10) RMA **" - ], - [ - "GSE15222_F_RI_0409", - "GSE15222 Human Brain Myers (Apr09) RankInv" - ], - [ - "GSE5281_F_RMA0709", - "GSE5281 Human Brain Full Liang (Jul09) RMA" - ], - [ - "GSE5281_RMA0709", - "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" - ], - [ - "UCLA_CTB6B6CTF2_BRAIN_FEMALE", - "UCLA CTB6B6CTF2 Brain Female mlratio **" - ], - [ "UCLA_CTB6B6CTF2_BRAIN_MALE", "UCLA CTB6B6CTF2 Brain Male mlratio **" ], [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ - "UCLA_BHF2_BRAIN_FEMALE", - "UCLA BHF2 Brain Female mlratio" - ], - [ - "UCLA_BHHBF2_BRAIN_FEMALE", - "UCLA BHHBF2 Brain Female Only" - ], - [ - "UCLA_BHHBF2_BRAIN_MALE", - "UCLA BHHBF2 Brain Male Only" - ], - [ - "UCLA_BHHBF2_BRAIN_2005", - "UCLA BHHBF2 Brain (2005) mlratio **" + "UCLA_CTB6B6CTF2_BRAIN_FEMALE", + "UCLA CTB6B6CTF2 Brain Female mlratio **" ], [ "UCLA_CTB6B6CTF2_BRAIN_2005", "UCLA CTB6/B6CTF2 Brain (2005) mlratio **" - ], - [ - "UCLA_BHF2_BRAIN_0605", - "UCLA BHF2 Brain (June05) mlratio" - ], - [ - "BR_M2_1106_R", - "UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA" - ], - [ - "IBR_M_0606_R", - "INIA Brain mRNA M430 (Jun06) RMA" - ], - [ - "IBR_M_0106_P", - "INIA Brain mRNA M430 (Jan06) PDNN" - ], - [ - "IBR_M_0106_R", - "INIA Brain mRNA M430 (Jan06) RMA" - ], - [ - "BR_U_1105_P", - "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" - ], - [ - "BR_U_0805_M", - "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" - ], - [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ - "BR_U_0805_R", - "UTHSC Brain mRNA U74Av2 (Aug05) RMA" - ], - [ - "BRF2_M_0805_R", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" - ], - [ - "BRF2_M_0805_P", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" - ], - [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" - ], - [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" - ], - [ - "BRF2_M_0304_M", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" - ], - [ - "CB_M_0204_P", - "INIA Brain mRNA M430 (Feb04) PDNN" ] ], "Genotypes": [ @@ -4156,178 +1508,30 @@ ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ "UCLA_CTB6B6CTF2_LIVER_MALE", "UCLA CTB6B6CTF2 Liver Male mlratio **" ], [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ "UCLA_CTB6B6CTF2_LIVER_FEMALE", "UCLA CTB6B6CTF2 Liver Female mlratio **" ], [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ "UCLA_CTB6B6CTF2_LIVER_2005", "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Muscle": [ [ - "EPFLMouseMuscleRMA1211", - "EPFL/LISP BXD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "EPFLMouseMuscleCDRMA1211", - "EPFL/LISP BXD CD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "EPFLMouseMuscleHFDRMA1211", - "EPFL/LISP BXD HFD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA **" - ], - [ - "UCLA_CTB6B6CTF2_MUSCLE_FEMALE", - "UCLA CTB6B6CTF2 Muscle Female mlratio **" - ], - [ "UCLA_CTB6B6CTF2_MUSCLE_MALE", "UCLA CTB6B6CTF2 Muscle Male mlratio **" ], [ - "UCLA_BHHBF2_MUSCLE_FEMALE", - "UCLA BHHBF2 Muscle Female Only" - ], - [ - "UCLA_BHHBF2_MUSCLE_MALE", - "UCLA BHHBF2 Muscle Male Only" - ], - [ - "UCLA_BHF2_MUSCLE_MALE", - "UCLA BHF2 Muscle Male mlratio **" - ], - [ - "UCLA_BHF2_MUSCLE_FEMALE", - "UCLA BHF2 Muscle Female mlratio **" - ], - [ - "UCLA_BHHBF2_MUSCLE_2005", - "UCLA BHHBF2 Muscle (2005) mlratio **" + "UCLA_CTB6B6CTF2_MUSCLE_FEMALE", + "UCLA CTB6B6CTF2 Muscle Female mlratio **" ], [ "UCLA_CTB6B6CTF2_MUSCLE_2005", "UCLA CTB6/B6CTF2 Muscle (2005) mlratio **" - ], - [ - "UCLA_BHF2_MUSCLE_0605", - "UCLA BHF2 Muscle (June05) mlratio **" ] ], "Phenotypes": [ @@ -4346,124 +1550,12 @@ ], "Hippocampus": [ [ - "KIN_YSM_HIP_0711", - "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ - "HC_M2_0606_MDP", - "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ - "OXUKHS_ILMHipp_RI0510", - "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ - "INIA_MacFas_Hc_RMA_0110", - "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" - ], - [ - "INIA_MacFas_He_RMA_0110", - "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ - "UT_HippRatEx_RMA_0709", - "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ - "Illum_LXS_Hipp_loess0807", - "Hippocampus Illumina (Aug07) LOESS" - ], - [ - "Illum_LXS_Hipp_loess_nb0807", - "Hippocampus Illumina (Aug07) LOESS_NB" - ], - [ - "Illum_LXS_Hipp_quant0807", - "Hippocampus Illumina (Aug07) QUANT" - ], - [ - "Illum_LXS_Hipp_quant_nb0807", - "Hippocampus Illumina (Aug07) QUANT_NB" - ], - [ - "Illum_LXS_Hipp_rsn0807", - "Hippocampus Illumina (Aug07) RSN" - ], - [ - "Illum_LXS_Hipp_rsn_nb0807", - "Hippocampus Illumina (Aug07) RSN_NB" - ], - [ - "Hipp_Illumina_RankInv_0507", - "Hippocampus Illumina (May07) RankInv" - ], - [ - "HC_M2_0606_P", - "Hippocampus Consortium M430v2 (Jun06) PDNN" - ], - [ - "HC_M2_0606_M", - "Hippocampus Consortium M430v2 (Jun06) MAS5" - ], - [ - "HC_M2_0606_R", - "Hippocampus Consortium M430v2 (Jun06) RMA" - ], - [ "HC_M2CB_1205_R", "Hippocampus Consortium M430v2 CXB (Dec05) RMA" ], [ "HC_M2CB_1205_P", "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ - "UMUTAffyExon_0209_RMA", - "UMUTAffy Hippocampus Exon (Feb09) RMA" - ], - [ - "UT_ILM_BXD_hipp_NON_0909", - "UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOS_0909", - "UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOE_0909", - "UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSS_0909", - "UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSE_0909", - "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOE_1008", - "Hippocampus Illumina NOE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSS_1008", - "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Phenotypes": [ @@ -4474,26 +1566,6 @@ ], "Spleen": [ [ - "UTHSC_SPL_RMA_1210", - "UTHSC Affy MoGene 1.0 ST Spleen (Dec10) RMA" - ], - [ - "UTHSC_SPL_RMA_1010", - "UTHSC Affy MoGene 1.0 ST Spleen (Oct10) RMA" - ], - [ - "IoP_SPL_RMA_0509", - "IoP Affy MOE 430v2 Spleen (May09) RMA" - ], - [ - "Illum_BXD_Spl_1108", - "UWA Illumina Spleen (Nov08) RSN **" - ], - [ - "UTK_BXDSpl_VST_0110", - "UTK Spleen ILM6.1 (Jan10) VST" - ], - [ "STSPL_1107_R", "Stuart Spleen M430v2 (Nov07) RMA" ] @@ -4508,264 +1580,20 @@ ], "Hippocampus": [ [ - "KIN_YSM_HIP_0711", - "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ - "HC_M2_0606_MDP", - "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ "OXUKHS_ILMHipp_RI0510", "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ - "INIA_MacFas_Hc_RMA_0110", - "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" - ], - [ - "INIA_MacFas_He_RMA_0110", - "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ - "UT_HippRatEx_RMA_0709", - "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ - "Illum_LXS_Hipp_loess0807", - "Hippocampus Illumina (Aug07) LOESS" - ], - [ - "Illum_LXS_Hipp_loess_nb0807", - "Hippocampus Illumina (Aug07) LOESS_NB" - ], - [ - "Illum_LXS_Hipp_quant0807", - "Hippocampus Illumina (Aug07) QUANT" - ], - [ - "Illum_LXS_Hipp_quant_nb0807", - "Hippocampus Illumina (Aug07) QUANT_NB" - ], - [ - "Illum_LXS_Hipp_rsn0807", - "Hippocampus Illumina (Aug07) RSN" - ], - [ - "Illum_LXS_Hipp_rsn_nb0807", - "Hippocampus Illumina (Aug07) RSN_NB" - ], - [ - "Hipp_Illumina_RankInv_0507", - "Hippocampus Illumina (May07) RankInv" - ], - [ - "HC_M2_0606_P", - "Hippocampus Consortium M430v2 (Jun06) PDNN" - ], - [ - "HC_M2_0606_M", - "Hippocampus Consortium M430v2 (Jun06) MAS5" - ], - [ - "HC_M2_0606_R", - "Hippocampus Consortium M430v2 (Jun06) RMA" - ], - [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ - "HC_M2CB_1205_P", - "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ - "UMUTAffyExon_0209_RMA", - "UMUTAffy Hippocampus Exon (Feb09) RMA" - ], - [ - "UT_ILM_BXD_hipp_NON_0909", - "UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOS_0909", - "UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOE_0909", - "UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSS_0909", - "UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSE_0909", - "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOE_1008", - "Hippocampus Illumina NOE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSS_1008", - "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ "OXUKHS_ILMLiver_RI0510", "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Lung": [ [ "OXUKHS_ILMLung_RI0510", "OX UK HS ILM6v1.1 Lung (May 2010) RankInv" - ], - [ - "HZI_0408_R", - "HZI Lung M430v2 (Apr08) RMA" - ], - [ - "HZI_0408_M", - "HZI Lung M430v2 (Apr08) MAS5" ] ], "Phenotypes": [ @@ -4790,76 +1618,8 @@ ], "Striatum": [ [ - "DevStriatum_ILM6.2P3RInv_1111", - "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov11) RankInv **" - ], - [ - "DevStriatum_ILM6.2P14RInv_1111", - "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov11) RankInv **" - ], - [ - "KIN_YSM_STR_0711", - "KIN/YSM Human STR Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ "OHSU_HS-CC_ILMStr_0211", "OHSU HS-CC Striatum ILM6v1 (Feb11) RankInv" - ], - [ - "UTHSC_Striatum_RankInv_1210", - "HQF BXD Striatum ILM6.1 (Dec10v2) RankInv" - ], - [ - "UTHSC_Str_RankInv_1210", - "HQF BXD Striatum ILM6.1 (Dec10) RankInv" - ], - [ - "UTHSC_1107_RankInv", - "HQF BXD Striatum ILM6.1 (Nov07) RankInv" - ], - [ - "SA_M2_0905_P", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN" - ], - [ - "SA_M2_0905_M", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5" - ], - [ - "SA_M2_0905_R", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA" - ], - [ - "SA_M2_0405_MC", - "HBP Rosen Striatum M430V2 (Apr05) MAS5 Clean" - ], - [ - "SA_M2_0405_RC", - "HBP Rosen Striatum M430V2 (Apr05) RMA Clean" - ], - [ - "SA_M2_0405_PC", - "HBP Rosen Striatum M430V2 (Apr05) PDNN Clean" - ], - [ - "SA_M2_0405_SS", - "HBP Rosen Striatum M430V2 (Apr05) SScore" - ], - [ - "SA_M2_0405_RR", - "HBP Rosen Striatum M430V2 (Apr05) RMA Orig" - ], - [ - "Striatum_Exon_0209", - "HQF Striatum Exon (Feb09) RMA" - ], - [ - "DevStriatum_ILM6.2P3RInv_1110", - "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **" - ], - [ - "DevStriatum_ILM6.2P14RInv_1110", - "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov10) RankInv **" ] ] }, @@ -4872,34 +1632,6 @@ ], "Hippocampus": [ [ - "KIN_YSM_HIP_0711", - "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ - "HC_M2_0606_MDP", - "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ - "OXUKHS_ILMHipp_RI0510", - "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ - "INIA_MacFas_Hc_RMA_0110", - "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" - ], - [ - "INIA_MacFas_He_RMA_0110", - "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ - "UT_HippRatEx_RMA_0709", - "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ "Illum_LXS_Hipp_loess0807", "Hippocampus Illumina (Aug07) LOESS" ], @@ -4928,68 +1660,24 @@ "Hippocampus Illumina (May07) RankInv" ], [ - "HC_M2_0606_P", - "Hippocampus Consortium M430v2 (Jun06) PDNN" - ], - [ - "HC_M2_0606_M", - "Hippocampus Consortium M430v2 (Jun06) MAS5" - ], - [ - "HC_M2_0606_R", - "Hippocampus Consortium M430v2 (Jun06) RMA" - ], - [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ - "HC_M2CB_1205_P", - "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ - "UMUTAffyExon_0209_RMA", - "UMUTAffy Hippocampus Exon (Feb09) RMA" - ], - [ - "UT_ILM_BXD_hipp_NON_0909", - "UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOS_0909", - "UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOE_0909", - "UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSS_0909", - "UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv" + "Illum_LXS_Hipp_NOS_1008", + "Hippocampus Illumina NOS (Oct08) RankInv beta" ], [ - "UT_ILM_BXD_hipp_RSE_0909", - "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" + "Illum_LXS_Hipp_NON_1008", + "Hippocampus Illumina NON (Oct08) RankInv beta" ], [ "Illum_LXS_Hipp_RSE_1008", "Hippocampus Illumina RSE (Oct08) RankInv beta" ], [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ "Illum_LXS_Hipp_NOE_1008", "Hippocampus Illumina NOE (Oct08) RankInv beta" ], [ "Illum_LXS_Hipp_RSS_1008", "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Phenotypes": [ @@ -5000,64 +1688,16 @@ ], "Prefrontal Cortex": [ [ - "HBTRC-MLPFC_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_N_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent Normal (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_AD_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent AD (Jun11) mlratio" - ], - [ - "HBTRC-MLPFC_HD_0611", - "HBTRC-MLC Human Prefrontal Cortex Agilent HD (Jun11) mlratio" - ], - [ - "INIA_MacFas_Pf_RMA_0110", - "INIA Macaca fasicularis Prefrontal Cortex control (Jan10) RMA **" - ], - [ - "INIA_MacFas_PfE_RMA_0110", - "INIA Macaca fasicularis Prefrontal Cortex ethanol (Jan10) RMA **" - ], - [ - "VCUSal_1006_R", - "VCU BXD PFC Et vs Sal M430 2.0 (Dec06) Sscore" - ], - [ - "VCUEtOH_1206_R", - "VCU BXD PFC EtOH M430 2.0 (Dec06) RMA" - ], - [ - "VCUSal_1206_R", - "VCU BXD PFC Sal M430 2.0 (Dec06) RMA" - ], - [ - "VCU_PF_Air_0111_R", - "VCU BXD PFC CIE Air M430 2.0 (Jan11) RMA **" - ], - [ - "VCU_PF_Et_0111_R", - "VCU BXD PFC CIE EtOH M430 2.0 (Jan11) RMA **" - ], - [ - "VCU_PF_AvE_0111_Ss", - "VCU BXD PFC EtOH vs CIE Air M430 2.0 (Jan11) Sscore **" - ], - [ - "VCUEt_vs_Sal_0806_R", - "VCU LXS PFC Et vs Sal M430A 2.0 (Aug06) Sscore **" - ], - [ "VCUEtOH_0806_R", "VCU LXS PFC EtOH M430A 2.0 (Aug06) RMA **" ], [ "VCUSal_0806_R", "VCU LXS PFC Sal M430A 2.0 (Aug06) RMA" + ], + [ + "VCUEt_vs_Sal_0806_R", + "VCU LXS PFC Et vs Sal M430A 2.0 (Aug06) Sscore **" ] ] }, @@ -5070,132 +1710,16 @@ ], "Hippocampus": [ [ - "KIN_YSM_HIP_0711", - "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ "UMUTAffyExon_0209_RMA_MDP", "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" ], [ "HC_M2_0606_MDP", "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ - "OXUKHS_ILMHipp_RI0510", - "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ - "INIA_MacFas_Hc_RMA_0110", - "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" - ], - [ - "INIA_MacFas_He_RMA_0110", - "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ - "UT_HippRatEx_RMA_0709", - "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ - "Illum_LXS_Hipp_loess0807", - "Hippocampus Illumina (Aug07) LOESS" - ], - [ - "Illum_LXS_Hipp_loess_nb0807", - "Hippocampus Illumina (Aug07) LOESS_NB" - ], - [ - "Illum_LXS_Hipp_quant0807", - "Hippocampus Illumina (Aug07) QUANT" - ], - [ - "Illum_LXS_Hipp_quant_nb0807", - "Hippocampus Illumina (Aug07) QUANT_NB" - ], - [ - "Illum_LXS_Hipp_rsn0807", - "Hippocampus Illumina (Aug07) RSN" - ], - [ - "Illum_LXS_Hipp_rsn_nb0807", - "Hippocampus Illumina (Aug07) RSN_NB" - ], - [ - "Hipp_Illumina_RankInv_0507", - "Hippocampus Illumina (May07) RankInv" - ], - [ - "HC_M2_0606_P", - "Hippocampus Consortium M430v2 (Jun06) PDNN" - ], - [ - "HC_M2_0606_M", - "Hippocampus Consortium M430v2 (Jun06) MAS5" - ], - [ - "HC_M2_0606_R", - "Hippocampus Consortium M430v2 (Jun06) RMA" - ], - [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ - "HC_M2CB_1205_P", - "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ - "UMUTAffyExon_0209_RMA", - "UMUTAffy Hippocampus Exon (Feb09) RMA" - ], - [ - "UT_ILM_BXD_hipp_NON_0909", - "UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOS_0909", - "UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOE_0909", - "UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSS_0909", - "UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSE_0909", - "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOE_1008", - "Hippocampus Illumina NOE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSS_1008", - "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ "JAX_CSB_L_0711", "JAX Liver Affy M430 2.0 (Jul11) MDP" ], @@ -5206,114 +1730,6 @@ [ "JAX_CSB_L_6C_0711", "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ - "HXB_Liver_1208", - "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Phenotypes": [ @@ -5334,18 +1750,6 @@ [ "NCI_Mam_Tum_RMA_0409", "NCI Mammary M430v2 (Apr09) RMA" - ], - [ - "NCI_Agil_Mam_Tum_RMA_0409", - "NCI Mammary LMT miRNA v2 (Apr09) RMA" - ], - [ - "MA_M_0704_R", - "NCI Mammary mRNA M430 (July04) RMA" - ], - [ - "MA_M_0704_M", - "NCI Mammary mRNA M430 (July04) MAS5" ] ], "Phenotypes": [ @@ -5378,152 +1782,12 @@ ], "Hippocampus": [ [ - "KIN_YSM_HIP_0711", - "KIN/YSM Human HIP Affy Hu-Exon 1.0 ST (Jul11) Quantile **" - ], - [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ - "HC_M2_0606_MDP", - "Hippocampus Consortium M430v2 (Jun06) RMA MDP" - ], - [ - "OXUKHS_ILMHipp_RI0510", - "OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv" - ], - [ - "INIA_MacFas_Hc_RMA_0110", - "INIA Macaca fasicularis Hippocampus control (Jan10) RMA **" - ], - [ - "INIA_MacFas_He_RMA_0110", - "INIA Macaca fasicularis Hippocampus ethanol (Jan10) RMA **" - ], - [ "UT_HippRatEx_RMA_0709", "UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA" - ], - [ - "Illum_LXS_Hipp_loess0807", - "Hippocampus Illumina (Aug07) LOESS" - ], - [ - "Illum_LXS_Hipp_loess_nb0807", - "Hippocampus Illumina (Aug07) LOESS_NB" - ], - [ - "Illum_LXS_Hipp_quant0807", - "Hippocampus Illumina (Aug07) QUANT" - ], - [ - "Illum_LXS_Hipp_quant_nb0807", - "Hippocampus Illumina (Aug07) QUANT_NB" - ], - [ - "Illum_LXS_Hipp_rsn0807", - "Hippocampus Illumina (Aug07) RSN" - ], - [ - "Illum_LXS_Hipp_rsn_nb0807", - "Hippocampus Illumina (Aug07) RSN_NB" - ], - [ - "Hipp_Illumina_RankInv_0507", - "Hippocampus Illumina (May07) RankInv" - ], - [ - "HC_M2_0606_P", - "Hippocampus Consortium M430v2 (Jun06) PDNN" - ], - [ - "HC_M2_0606_M", - "Hippocampus Consortium M430v2 (Jun06) MAS5" - ], - [ - "HC_M2_0606_R", - "Hippocampus Consortium M430v2 (Jun06) RMA" - ], - [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ - "HC_M2CB_1205_P", - "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" - ], - [ - "UMUTAffyExon_0209_RMA", - "UMUTAffy Hippocampus Exon (Feb09) RMA" - ], - [ - "UT_ILM_BXD_hipp_NON_0909", - "UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOS_0909", - "UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_NOE_0909", - "UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSS_0909", - "UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv" - ], - [ - "UT_ILM_BXD_hipp_RSE_0909", - "UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOS_1008", - "Hippocampus Illumina NOS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NOE_1008", - "Hippocampus Illumina NOE (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSS_1008", - "Hippocampus Illumina RSS (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" ] ], "Kidney": [ [ - "MA_M2F_0706_R", - "Mouse kidney M430v2 Female (Aug06) RMA" - ], - [ - "MA_M2M_0706_R", - "Mouse kidney M430v2 Male (Aug06) RMA" - ], - [ - "MA_M2_0806_R", - "Mouse kidney M430v2 Sex Balanced (Aug06) RMA" - ], - [ - "MA_M2_0806_P", - "Mouse Kidney M430v2 Sex Balanced (Aug06) PDNN" - ], - [ - "MA_M2_0706_P", - "Mouse Kidney M430v2 (Jul06) PDNN" - ], - [ - "MA_M2_0706_R", - "Mouse Kidney M430v2 (Jul06) RMA" - ], - [ "KI_2A_0405_M", "MDC/CAS/ICL Kidney 230A (Apr05) MAS5" ], @@ -5538,128 +1802,8 @@ ], "Liver": [ [ - "GSE16780_UCLA_ML0911", - "GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA" - ], - [ - "JAX_CSB_L_0711", - "JAX Liver Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_HF_0711", - "JAX Liver HF Affy M430 2.0 (Jul11) MDP" - ], - [ - "JAX_CSB_L_6C_0711", - "JAX Liver 6C Affy M430 2.0 (Jul11) MDP" - ], - [ - "HLC_0311", - "GSE9588 Human Liver Normal (Mar11) Both Sexes" - ], - [ - "HLCM_0311", - "GSE9588 Human Liver Normal (Mar11) Males" - ], - [ - "LV_G_0106_F", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Females" - ], - [ - "LV_G_0106_M", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Males" - ], - [ - "LV_G_0106_B", - "UNC Agilent G4121A Liver LOWESS Stanford (Jan06) Both Sexes" - ], - [ - "GenEx_BXD_liverSal_RMA_F_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverSal_RMA_M_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverSal_RMA_0211", - "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "GenEx_BXD_liverEt_RMA_F_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **" - ], - [ - "GenEx_BXD_liverEt_RMA_M_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **" - ], - [ - "GenEx_BXD_liverEt_RMA_0211", - "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **" - ], - [ - "SUH_Liv_RMA_0611", - "SUH BXD Liver Affy Mouse Gene 1.0 ST (Jun11) RMA **" - ], - [ - "OXUKHS_ILMLiver_RI0510", - "OX UK HS ILM6v1.1 Liver (May 2010) RankInv" - ], - [ "HXB_Liver_1208", "MDC/CAS/UCL Liver 230v2 (Dec08) RMA" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_MALE", - "UCLA CTB6B6CTF2 Liver Male mlratio **" - ], - [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_FEMALE", - "UCLA CTB6B6CTF2 Liver Female mlratio **" - ], - [ - "UCLA_BHHBF2_LIVER_FEMALE", - "UCLA BHHBF2 Liver Female Only" - ], - [ - "UCLA_BHHBF2_LIVER_MALE", - "UCLA BHHBF2 Liver Male Only" - ], - [ - "UCLA_BHF2_LIVER_FEMALE", - "UCLA BHF2 Liver Female mlratio" - ], - [ - "UCLA_BHHBF2_LIVER_2005", - "UCLA BHHBF2 Liver (2005) mlratio **" - ], - [ - "UCLA_CTB6B6CTF2_LIVER_2005", - "UCLA CTB6/B6CTF2 Liver (2005) mlratio **" - ], - [ - "UCLA_BHF2_LIVER_0605", - "UCLA BHF2 Liver (June05) mlratio" - ], - [ - "UCLA_BDF2_LIVER_1999", - "UCLA BDF2 Liver (1999) mlratio" - ], - [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ - "LVF2_M_0704_M", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" - ], - [ - "HLCF_0311", - "GSE9588 Human Liver Normal (Mar11) Females" ] ], "Peritoneal Fat": [ @@ -5682,38 +1826,6 @@ "SRxSHRSPF2": { "Eye": [ [ - "Eye_AXBXA_1008_RankInv", - "Eye AXBXA Illumina V6.2(Oct08) RankInv Beta" - ], - [ - "Eye_M2_0908_R", - "Eye M430v2 (Sep08) RMA" - ], - [ - "Eye_M2_0908_R_NB", - "Eye M430v2 Mutant Gpnmb (Sep08) RMA **" - ], - [ - "Eye_M2_0908_R_ND", - "Eye M430v2 WT Gpnmb (Sep08) RMA **" - ], - [ - "Eye_M2_0908_WTWT", - "Eye M430v2 WT WT (Sep08) RMA **" - ], - [ - "Eye_M2_0908_R_WT", - "Eye M430v2 WT Tyrp1 (Sep08) RMA **" - ], - [ - "Eye_M2_0908_R_MT", - "Eye M430v2 Mutant Tyrp1 (Sep08) RMA **" - ], - [ - "BXD_GLA_0911", - "BXD Glaucoma Affy M430 2.0 Trial (Sep11) RMA **" - ], - [ "UIOWA_Eye_RMA_0906", "UIOWA Eye mRNA RAE230v2 (Sep06) RMA" ] diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py index e7e260fe..d639ed07 100644 --- a/wqflask/wqflask/views.py +++ b/wqflask/wqflask/views.py @@ -23,6 +23,10 @@ from base import webqtlFormData from pprint import pformat as pf +#import logging +#logging.basicConfig(filename="/tmp/gn_log", level=logging.INFO) +#_log = logging.getLogger("correlation") + @app.route("/") def index_page(): @@ -33,7 +37,7 @@ def index_page(): @app.route("/new") def new_index_page(): print("Sending index_page") - + return render_template("new_index_page.html") @app.route("/data_sharing") @@ -54,6 +58,7 @@ def data_sharing_page(): @app.route("/search") def search_page(): + print("in search_page") if 'info_database' in request.args: print("Going to sharing_info_page") template_vars = sharing_info_page() @@ -63,7 +68,9 @@ def search_page(): else: return render_template("data_sharing.html", **template_vars.__dict__) else: + print("calling search_results.SearchResultPage") the_search = search_results.SearchResultPage(request.args) + print("done calling") return render_template("search_result_page.html", **the_search.__dict__) |