aboutsummaryrefslogtreecommitdiff
path: root/wqflask
diff options
context:
space:
mode:
Diffstat (limited to 'wqflask')
-rwxr-xr-xwqflask/base/webqtlConfig.py2
-rwxr-xr-xwqflask/maintenance/gen_select_dataset.py21
-rw-r--r--wqflask/wqflask/marker_regression/marker_regression_gn1.py65
-rwxr-xr-xwqflask/wqflask/static/new/javascript/dataset_menu_structure.json687
-rw-r--r--wqflask/wqflask/static/new/javascript/dataset_select_menu.js12
-rwxr-xr-xwqflask/wqflask/templates/index_page.html7
-rwxr-xr-xwqflask/wqflask/templates/search_result_page.html2
-rwxr-xr-xwqflask/wqflask/views.py8
8 files changed, 660 insertions, 144 deletions
diff --git a/wqflask/base/webqtlConfig.py b/wqflask/base/webqtlConfig.py
index 330fec56..4f9b3af3 100755
--- a/wqflask/base/webqtlConfig.py
+++ b/wqflask/base/webqtlConfig.py
@@ -55,7 +55,7 @@ COMMON_LIB = GNROOT + 'support/admin'
HTMLPATH = GNROOT + 'genotype_files/'
PYLMM_PATH = '/home/zas1024/plink_gemma/'
SNP_PATH = '/home/zas1024/snps/'
-IMGDIR = GNROOT + '/wqflask/wqflask/images/'
+IMGDIR = GNROOT + '/wqflask/output/'
IMAGESPATH = HTMLPATH + 'images/'
UPLOADPATH = IMAGESPATH + 'upload/'
TMPDIR = '/home/zas1024/tmp/' # Will remove this and dependent items later
diff --git a/wqflask/maintenance/gen_select_dataset.py b/wqflask/maintenance/gen_select_dataset.py
index a2ad8c91..fda46792 100755
--- a/wqflask/maintenance/gen_select_dataset.py
+++ b/wqflask/maintenance/gen_select_dataset.py
@@ -123,12 +123,12 @@ def get_types(groups):
def phenotypes_exist(group_name):
- print("group_name:", group_name)
+ #print("group_name:", group_name)
Cursor.execute("""select Name from PublishFreeze
where PublishFreeze.Name = %s""", (group_name+"Publish"))
results = Cursor.fetchone()
- print("RESULTS:", results)
+ #print("RESULTS:", results)
if results != None:
return True
@@ -136,12 +136,12 @@ def phenotypes_exist(group_name):
return False
def genotypes_exist(group_name):
- print("group_name:", group_name)
+ #print("group_name:", group_name)
Cursor.execute("""select Name from GenoFreeze
where GenoFreeze.Name = %s""", (group_name+"Geno"))
results = Cursor.fetchone()
- print("RESULTS:", results)
+ #print("RESULTS:", results)
if results != None:
return True
@@ -220,7 +220,7 @@ def build_datasets(species, group, type_name):
# and ProbeFreeze.TissueId = Tissue.Id and ProbeFreeze.InbredSetId =
# InbredSet.Id and ProbeSetFreeze.public > 0 order by
# ProbeSetFreeze.CreateTime desc""".format(species, group, type_name))
- Cursor.execute("""select ProbeSetFreeze.Name, ProbeSetFreeze.FullName from
+ Cursor.execute("""select ProbeSetFreeze.Id, ProbeSetFreeze.Name, ProbeSetFreeze.FullName from
ProbeSetFreeze, ProbeFreeze, InbredSet, Tissue, Species where
Species.Name = %s and Species.Id = InbredSet.SpeciesId and
InbredSet.Name = %s and
@@ -228,7 +228,16 @@ def build_datasets(species, group, type_name):
and ProbeFreeze.TissueId = Tissue.Id and ProbeFreeze.InbredSetId =
InbredSet.Id and ProbeSetFreeze.public > 0 order by
ProbeSetFreeze.CreateTime desc""", (species, group, type_name))
- return Cursor.fetchall()
+
+ dataset_results = Cursor.fetchall()
+ datasets = []
+ for dataset_info in dataset_results:
+ this_dataset_info = []
+ for info in dataset_info:
+ this_dataset_info.append(str(info))
+ datasets.append(this_dataset_info)
+
+ return datasets
def main():
diff --git a/wqflask/wqflask/marker_regression/marker_regression_gn1.py b/wqflask/wqflask/marker_regression/marker_regression_gn1.py
index f2fc12a4..c2cd5e97 100644
--- a/wqflask/wqflask/marker_regression/marker_regression_gn1.py
+++ b/wqflask/wqflask/marker_regression/marker_regression_gn1.py
@@ -37,13 +37,14 @@ from flask import Flask, g
from htmlgen import HTMLgen2 as HT
+
from utility import helper_functions
from utility import Plot
from base import webqtlConfig
#from intervalAnalyst import GeneUtil
#from base.webqtlTrait import webqtlTrait
#from base.templatePage import templatePage
-#from utility import webqtlUtil
+from utility import webqtlUtil
#from utility.THCell import THCell
#from utility.TDCell import TDCell
#from dbFunction import webqtlDatabaseFunction
@@ -507,19 +508,16 @@ class MarkerRegression(object):
################################################################
# Plots goes here
################################################################
- print("BEFORE GN1 PLOT")
if self.plotScale != 'physic' or self.multipleInterval:
showLocusForm = webqtlUtil.genRandStr("fm_")
else:
showLocusForm = ""
- print("BEFORE PIL CANVAS")
intCanvas = pid.PILCanvas(size=(self.graphWidth,self.graphHeight))
- print("BEFORE PLOTINTMAPPING")
gifmap = self.plotIntMapping(intCanvas, startMb = self.startMb, endMb = self.endMb, showLocusForm= showLocusForm)
print("AFTER PLOTINTMAPPING")
filename= webqtlUtil.genRandStr("Itvl_")
- intCanvas.save(os.path.join(webqtlConfig.IMGDIR, filename), format='png')
+ intCanvas.save(os.path.join(webqtlConfig.IMGDIR, filename), format='jpeg')
intImg=HT.Image('/image/'+filename+'.png', border=0, usemap='#WebQTLImageMap')
#Scales plot differently for high resolution
@@ -743,7 +741,6 @@ class MarkerRegression(object):
endPixelX = (xLeftOffset + plotWidth)
#Drawing Area Height
- print("DRAWING AREA HEIGHT")
drawAreaHeight = plotHeight
if self.plotScale == 'physic' and self.selectedChr > -1:
drawAreaHeight -= self.ENSEMBL_BAND_HEIGHT + self.UCSC_BAND_HEIGHT+ self.WEBQTL_BAND_HEIGHT + 3*self.BAND_SPACING+ 10*zoom
@@ -769,7 +766,6 @@ class MarkerRegression(object):
newoffset = (xLeftOffset, xRightOffset, yTopOffset, yBottomOffset)
# Draw the alternating-color background first and get plotXScale
- print("DRAW BACKGROUND")
plotXScale = self.drawGraphBackground(canvas, gifmap, offset=newoffset, zoom= zoom, startMb=startMb, endMb = endMb)
#draw bootstap
@@ -778,7 +774,6 @@ class MarkerRegression(object):
# Draw clickable region and gene band if selected
if self.plotScale == 'physic' and self.selectedChr > -1:
- print("DRAW CLICKABLE REGION")
self.drawClickBand(canvas, gifmap, plotXScale, offset=newoffset, zoom = zoom, startMb=startMb, endMb = endMb)
if self.geneChecked and self.geneCol:
self.drawGeneBand(canvas, gifmap, plotXScale, offset=newoffset, zoom = zoom, startMb=startMb, endMb = endMb)
@@ -786,18 +781,14 @@ class MarkerRegression(object):
self.drawSNPTrackNew(canvas, offset=newoffset, zoom = 2*zoom, startMb=startMb, endMb = endMb)
## BEGIN HaplotypeAnalyst
if self.haplotypeAnalystChecked:
- print("DRAW HAPLOTYPE")
self.drawHaplotypeBand(canvas, gifmap, plotXScale, offset=newoffset, zoom = zoom, startMb=startMb, endMb = endMb)
## END HaplotypeAnalyst
# Draw X axis
- print("DRAW X AXIS")
self.drawXAxis(canvas, drawAreaHeight, gifmap, plotXScale, showLocusForm, offset=newoffset, zoom = zoom, startMb=startMb, endMb = endMb)
# Draw QTL curve
- print("DRAW QTL CURVE")
self.drawQTL(canvas, drawAreaHeight, gifmap, plotXScale, offset=newoffset, zoom= zoom, startMb=startMb, endMb = endMb)
#draw legend
- print("DRAW LEGEND")
if self.multipleInterval:
self.drawMultiTraitName(fd, canvas, gifmap, showLocusForm, offset=newoffset)
elif self.legendChecked:
@@ -806,7 +797,6 @@ class MarkerRegression(object):
pass
#draw position, no need to use a separate function
- print("DRAW PROBESET POSITION")
if self.genotype.Mbmap:
self.drawProbeSetPosition(canvas, plotXScale, offset=newoffset, zoom = zoom)
@@ -1823,7 +1813,7 @@ class MarkerRegression(object):
lodm = self.LODFACTOR
else:
lodm = 1.0
-
+
if self.lrsMax <= 0: #sliding scale
if "lrs_value" in self.qtlresults[0]:
LRSMax = max([result['lrs_value'] for result in self.qtlresults])
@@ -1874,6 +1864,7 @@ class MarkerRegression(object):
#"Significant" and "Suggestive" Drawing Routine
# ======= Draw the thick lines for "Significant" and "Suggestive" ===== (crowell: I tried to make the SNPs draw over these lines, but piddle wouldn't have it...)
+ print("DRAW SUGGESTIVE/SIGNFICANT LINES")
if self.permChecked and not self.multipleInterval:
significantY = yZero - self.significance*LRSHeightThresh/LRSMax
suggestiveY = yZero - self.suggestive*LRSHeightThresh/LRSMax
@@ -1912,23 +1903,37 @@ class MarkerRegression(object):
if zoom == 2:
lrsEdgeWidth = 2 * lrsEdgeWidth
+ print("DRAW QTL RESULT CURVE")
+
+ LRSCoordXY = []
+ AdditiveCoordXY = []
+ DominanceCoordXY = []
+
+ previous_chr = 1
+ previous_chr_as_int = 1
for i, qtlresult in enumerate(self.qtlresults):
m = 0
startPosX = xLeftOffset
thisLRSColor = self.colorCollection[0]
- for j, _chr in enumerate(self.genotype):
- LRSCoordXY = []
- AdditiveCoordXY = []
- DominanceCoordXY = []
- for k, _locus in enumerate(_chr):
+ #for j, _chr in enumerate(self.genotype):
+ if 1 == 1:
+ #LRSCoordXY = []
+ #AdditiveCoordXY = []
+ #DominanceCoordXY = []
+ #for k, _locus in enumerate(_chr):
+ if 1 == 1:
if self.plotScale == 'physic':
- Xc = startPosX + (_locus.Mb-startMb)*plotXScale
+ #Xc = startPosX + (_locus.Mb-startMb)*plotXScale
+ Xc = startPosX + (qtlresult['Mb']-startMb)*plotXScale
else:
- Xc = startPosX + (_locus.cM-_chr[0].cM)*plotXScale
+ #Xc = startPosX + (_locus.cM-_chr[0].cM)*plotXScale
+ Xc = startPosX + (qtlresult['cM']-qtlresult[0]['cM'])*plotXScale
+
# updated by NL 06-18-2011:
# fix the over limit LRS graph issue since genotype trait may give infinite LRS;
# for any lrs is over than 460(LRS max in this system), it will be reset to 460
if qtlresult['lrs_value'] > 460 or qtlresult['lrs_value']=='inf':
+ #if self.qtlresults[j]['lrs_value'] > 460 or self.qtlresults[j]['lrs_value']=='inf':
Yc = yZero - webqtlConfig.MAXLRS*LRSHeightThresh/LRSMax
else:
Yc = yZero - qtlresult['lrs_value']*LRSHeightThresh/LRSMax
@@ -1943,7 +1948,7 @@ class MarkerRegression(object):
# Yc = yZero - qtlresult[m].dominance*DominanceHeightThresh/dominanceMax
# DominanceCoordXY.append((Xc, Yc))
m += 1
- canvas.drawPolygon(LRSCoordXY,edgeColor=thisLRSColor,closed=0, edgeWidth=lrsEdgeWidth, clipX=(xLeftOffset, xLeftOffset + plotWidth))
+ #canvas.drawPolygon(LRSCoordXY,edgeColor=thisLRSColor,closed=0, edgeWidth=lrsEdgeWidth, clipX=(xLeftOffset, xLeftOffset + plotWidth))
lineWidth = 1
if not self.multipleInterval and self.additiveChecked:
@@ -2004,7 +2009,21 @@ class MarkerRegression(object):
canvas.drawLine(Xc0, Yc0, Xc, Yc, color=plusColor, width=lineWidth, clipX=(xLeftOffset, xLeftOffset + plotWidth))
else:
canvas.drawLine(Xc0, yZero - (Yc0-yZero), Xc, yZero - (Yc-yZero), color=minusColor, width=lineWidth, clipX=(xLeftOffset, xLeftOffset + plotWidth))
- startPosX += (self.ChrLengthDistList[j]+self.GraphInterval)*plotXScale
+
+ print("previous_chr:", previous_chr_as_int)
+ startPosX += (self.ChrLengthDistList[previous_chr_as_int-1]+self.GraphInterval)*plotXScale
+ #startPosX += (self.ChrLengthDistList[j]+self.GraphInterval)*plotXScale
+
+ if qtlresult['chr'] != previous_chr:
+ previous_chr = qtlresult['chr']
+ try:
+ previous_chr_as_int = int(previous_chr)
+ except:
+ previous_chr_as_int += 1
+
+ canvas.drawPolygon(LRSCoordXY,edgeColor=thisLRSColor,closed=0, edgeWidth=lrsEdgeWidth, clipX=(xLeftOffset, xLeftOffset + plotWidth))
+
+ print("AFTER QTL CURVE")
###draw additive scale
if not self.multipleInterval and self.additiveChecked:
diff --git a/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json b/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json
index e790c9c0..da9beb9b 100755
--- a/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json
+++ b/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json
@@ -58,18 +58,22 @@
"QSM": {
"Leaf mRNA": [
[
+ "236",
"B1LI0809R",
"Barley1 Leaf INOC TTKS (Aug09) RMA"
],
[
+ "235",
"B1LI0809M5",
"Barley1 Leaf INOC TTKS (Aug09) MAS5"
],
[
+ "237",
"B1MI0809M5",
"Barley1 Leaf MOCK TTKS (Aug09) MAS5"
],
[
+ "238",
"B1MI0809R",
"Barley1 Leaf MOCK TTKS (Aug09) RMA"
]
@@ -78,14 +82,17 @@
"SXM": {
"Embryo mRNA": [
[
+ "128",
"B139_K_1206_R",
"Barley1 Embryo gcRMA SCRI (Dec06)"
],
[
+ "124",
"B139_K_1206_M",
"Barley1 Embryo MAS 5.0 SCRI (Dec06)"
],
[
+ "114",
"B150_K_0406_R",
"Barley1 Embryo0 gcRMA SCRI (Apr06)"
]
@@ -98,16 +105,19 @@
],
"Leaf mRNA": [
[
+ "127",
"B30_K_1206_M",
"Barley1 Leaf MAS 5.0 SCRI (Dec06)"
],
[
- "B30_K_1206_R",
- "Barley1 Leaf gcRMA SCRI (Dec06)"
- ],
- [
+ "126",
"B30_K_1206_Rn",
"Barley1 Leaf gcRMAn SCRI (Dec06)"
+ ],
+ [
+ "125",
+ "B30_K_1206_R",
+ "Barley1 Leaf gcRMA SCRI (Dec06)"
]
],
"Phenotypes": [
@@ -122,6 +132,7 @@
"DGRP": {
"Whole Body mRNA": [
[
+ "297",
"NCSU_DrosWB_LC_RMA_0111",
"NCSU Drosophila Whole Body (Jan11) RMA"
]
@@ -130,10 +141,12 @@
"Oregon-R_x_2b3": {
"Whole Body mRNA": [
[
+ "249",
"UAB_DrosWB_LC_RMA_1009",
"UAB Whole body D.m. mRNA control (Oct09) RMA"
],
[
+ "250",
"UAB_DrosWB_LE_RMA_1009",
"UAB Whole body D.m. mRNA lead (pbAc) (Oct09) RMA"
]
@@ -144,18 +157,22 @@
"AD-cases-controls": {
"Brain mRNA": [
[
+ "314",
"GSE5281_F_RMA_N_0709",
"GSE5281 Human Brain Normal Full Liang (Jul09) RMA"
],
[
+ "313",
"GSE5281_F_RMA_Alzh_0709",
"GSE5281 Human Brain Alzheimer Full Liang (Jul09) RMA"
],
[
+ "233",
"GSE5281_F_RMA0709",
"GSE5281 Human Brain Full Liang (Jul09) RMA"
],
[
+ "232",
"GSE5281_RMA0709",
"GSE5281 Human Brain Best 102 Liang (Jul09) RMA"
]
@@ -164,14 +181,17 @@
"AD-cases-controls-Myers": {
"Brain mRNA": [
[
+ "234",
"GSE15222_F_RI_0409",
"GSE15222 Human Brain All Cases Myers (Apr09) RankInv"
],
[
+ "290",
"GSE15222_F_N_RI_0409",
"GSE15222 Human Brain Normal Myers (Apr09) RankInv"
],
[
+ "289",
"GSE15222_F_A_RI_0409",
"GSE15222 Human Brain Alzheimer Myers (Apr09) RankInv"
]
@@ -186,24 +206,28 @@
"Aging-Brain-UCI": {
"Entorhinal Cortex mRNA": [
[
+ "460",
"UCI_EC_0913",
"GSE11882 UCI Human Entorhinal Cortex Affy U133 Plus2 (Sep13) RMA"
]
],
"Hippocampus mRNA": [
[
+ "461",
"UCI_HC_0913",
"GSE11882 UCI Human Hippocampus Affy U133 Plus2 (Sep13) RMA"
]
],
"Postcentral Gyrus mRNA": [
[
+ "462",
"UCI_PCG_0913",
"GSE11882 UCI Human Postcentral Gyrus Affy U133 Plus2 (Sep13) RMA"
]
],
"Superior Frontal Gyrus mRNA": [
[
+ "463",
"UCI_SG_0913",
"GSE11882 UCI Human Superior Frontal Gyrus Affy U133 Plus2 (Sep13) RMA"
]
@@ -212,24 +236,28 @@
"Brain-Normal-NIH-Gibbs": {
"Cerebellum mRNA": [
[
+ "481",
"GSE15745-GPL6104_Cer0510",
"GSE15745 NIH Human Brain Cerebellum ILM humanRef-8 v2.0 (May10) RankInv"
]
],
"Pons mRNA": [
[
+ "484",
"GSE15745-GPL6104_Po0510",
"GSE15745 NIH Human Brain Pons ILM humanRef-8 v2.0 (May10) RankInv"
]
],
"Prefrontal Cortex mRNA": [
[
+ "482",
"GSE15745-GPL6104_PFC0510",
"GSE15745 NIH Human Brain Prefrontal Cortex ILM humanRef-8 v2.0 (May10) RankInv"
]
],
"Temporal Cerebral Wall mRNA": [
[
+ "483",
"GSE15745-GPL6104_TC0510",
"GSE15745 NIH Human Brain Temporal Cerebral ILM humanRef-8 v2.0 (May10) RankInv"
]
@@ -238,16 +266,19 @@
"CANDLE": {
"Methylation": [
[
+ "423",
"CANDLE_Meth27_0313",
"CANDLE Newborn Cord ILM HumanMethylation27 (Mar13) **"
],
[
+ "422",
"CANDLE_Meth_0313",
"CANDLE Newborn Cord ILM HumanMethylation27 (Mar13) Z-Score **"
]
],
"Newborn Cord Blood mRNA": [
[
+ "324",
"CANDLE_NB_0711",
"CANDLE Newborn Cord ILMv6.3 (Jun11) QUANT"
]
@@ -262,10 +293,12 @@
"CEPH-2004": {
"Lymphoblast B-cell mRNA": [
[
+ "241",
"UT_CEPH_RankInv0909",
"UTHSC CEPH B-cells Illumina (Sep09) RankInv"
],
[
+ "215",
"Human_1008",
"Monks CEPH B-cells Agilent (Dec04) Log10Ratio"
]
@@ -274,470 +307,564 @@
"GTEx": {
"Adrenal Gland mRNA": [
[
+ "545",
"GTEx_log2_Adren_0314",
"GTEx Human Adrenal Gland (Mar14) RPKM Log2"
],
[
+ "495",
"GTEx_Adren_0414",
"GTEx Human Adrenal Gland (Apr14) RPKM"
]
],
"Amygdala mRNA": [
[
+ "542",
"GTEx_log2_AMY_0314",
"GTEx Human Amygdala (Mar14) RPKM Log2"
],
[
+ "492",
"GTEx_AMY_0314",
"GTEx Human Amygdala (Mar14) RPKM"
]
],
"Anterior Cingulate Cortex mRNA": [
[
+ "546",
"GTEx_log2_Anter_0314",
"GTEx Human Anterior Cingulate Cortex (Mar14) RPKM Log2"
],
[
+ "496",
"GTEx_Anter_0414",
"GTEx Human Anterior Cingulate Cortex (Apr14) RPKM"
]
],
"Aorta mRNA": [
[
+ "547",
"GTEx_log2_Aorta_0314",
"GTEx Human Aorta (Mar14) RPKM Log2"
],
[
+ "497",
"GTEx_Aorta_0414",
"GTEx Human Aorta (Apr14) RPKM"
]
],
"Blood, Cells - EBV-Transformed Lymphocytes mRNA": [
[
+ "548",
"GTEx_log2_Blood_0314",
"GTEx Human Blood, Cells - EBV-Transformed Lymphocytes (Mar14) RPKM Log2"
],
[
+ "498",
"GTEx_Blood_0414",
"GTEx Human Blood, Cells - EBV-Transformed Lymphocytes (Apr14) RPKM"
]
],
"Breast - Mammary Tissue mRNA": [
[
+ "549",
"GTEx_log2_Breas_0314",
"GTEx Human Breast - Mammary Tissue (Mar14) RPKM Log2"
],
[
+ "499",
"GTEx_Breas_0414",
"GTEx Human Breast - Mammary Tissue (Apr14) RPKM"
]
],
"Caudate mRNA": [
[
+ "550",
"GTEx_log2_Cauda_0314",
"GTEx Human Caudate (Mar14) RPKM Log2"
],
[
+ "500",
"GTEx_Cauda_0414",
"GTEx Human Caudate (Apr14) RPKM"
]
],
"Cells - EBV-Transformed Lymphocytes mRNA": [
[
+ "551",
"GTEx_log2_CellsEBV_0314",
"GTEx Human Cells - EBV-Transformed Lymphocytes (Mar14) RPKM Log2"
],
[
+ "501",
"GTEx_CellsEBV_0414",
"GTEx Human Cells - EBV-Transformed Lymphocytes (Apr14) RPKM"
]
],
"Cells - Leukemia Cell Line (CML) mRNA": [
[
+ "552",
"GTEx_log2_CellsLe_0314",
"GTEx Human Cells - Leukemia Cell Line (CML) (Mar14) RPKM Log2"
],
[
+ "502",
"GTEx_CellsLe_0414",
"GTEx Human Cells - Leukemia Cell Line (CML) (Apr14) RPKM"
]
],
"Cells - Transformed Fibroblasts mRNA": [
[
+ "553",
"GTEx_log2_CellsTr_0314",
"GTEx Human Cells - Transformed Fibroblasts (Mar14) RPKM Log2"
],
[
+ "503",
"GTEx_CellsTr_0414",
"GTEx Human Cells - Transformed Fibroblasts (Apr14) RPKM"
]
],
"Cerebellar Cortex mRNA": [
[
+ "554",
"GTEx_log2_CerebC_0314",
"GTEx Human Cerebellar Cortex (Mar14) RPKM Log2"
],
[
+ "504",
"GTEx_CerebC_0414",
"GTEx Human Cerebellar Cortex (Apr14) RPKM"
]
],
"Cerebellar Hemisphere mRNA": [
[
+ "555",
"GTEx_log2_CerebH_0314",
"GTEx Human Cerebellar Hemisphere (Mar14) RPKM Log2"
],
[
+ "505",
"GTEx_CerebH_0414",
"GTEx Human Cerebellar Hemisphere (Apr14) RPKM"
]
],
"Cerebellum mRNA": [
[
+ "543",
"GTEx_log2_CER_0314",
"GTEx Human Cerebellum (Mar14) RPKM Log2"
],
[
+ "493",
"GTEx_CER_0314",
"GTEx Human Cerebellum (Mar14) RPKM"
]
],
"Colon - Transverse mRNA": [
[
+ "556",
"GTEx_log2_Colon_0314",
"GTEx Human Colon - Transverse (Mar14) RPKM Log2"
],
[
+ "506",
"GTEx_Colon_0414",
"GTEx Human Colon - Transverse (Apr14) RPKM"
]
],
"Coronary mRNA": [
[
+ "557",
"GTEx_log2_Coron_0314",
"GTEx Human Coronary (Mar14) RPKM Log2"
],
[
+ "507",
"GTEx_Coron_0414",
"GTEx Human Coronary (Apr14) RPKM"
]
],
"Esophagus - Mucosa mRNA": [
[
+ "558",
"GTEx_log2_EsophMuc_0314",
"GTEx Human Esophagus - Mucosa (Mar14) RPKM Log2"
],
[
+ "508",
"GTEx_EsophMuc_0414",
"GTEx Human Esophagus - Mucosa (Apr14) RPKM"
]
],
"Esophagus - Muscularis mRNA": [
[
+ "559",
"GTEx_log2_EsophMus_0314",
"GTEx Human Esophagus - Muscularis (Mar14) RPKM Log2"
],
[
+ "509",
"GTEx_EsophMus_0414",
"GTEx Human Esophagus - Muscularis (Apr14) RPKM"
]
],
"Fallopian Tube mRNA": [
[
+ "560",
"GTEx_log2_Fallo_0314",
"GTEx Human Fallopian Tube (Mar14) RPKM Log2"
],
[
+ "510",
"GTEx_Fallo_0414",
"GTEx Human Fallopian Tube (Apr14) RPKM"
]
],
"Frontal Cortex mRNA": [
[
+ "561",
"GTEx_log2_Front_0314",
"GTEx Human Frontal Cortex (Mar14) RPKM Log2"
],
[
+ "511",
"GTEx_Front_0414",
"GTEx Human Frontal Cortex (Apr14) RPKM"
]
],
"Heart - Atrial Appendage mRNA": [
[
+ "562",
"GTEx_log2_HeartAt_0314",
"GTEx Human Heart - Atrial Appendage (Mar14) RPKM Log2"
],
[
+ "512",
"GTEx_HeartAt_0414",
"GTEx Human Heart - Atrial Appendage (Apr14) RPKM"
]
],
"Heart - Left Ventricle mRNA": [
[
+ "563",
"GTEx_log2_HeartLV_0314",
"GTEx Human Heart - Left Ventricle (Mar14) RPKM Log2"
],
[
+ "513",
"GTEx_HeartLV_0414",
"GTEx Human Heart - Left Ventricle (Apr14) RPKM"
]
],
"Hippocampus mRNA": [
[
+ "544",
"GTEx_log2_HIP_0314",
"GTEx Human Hippocampus (Mar14) RPKM Log2"
],
[
+ "494",
"GTEx_HIP_0314",
"GTEx Human Hippocampus (Mar14) RPKM"
]
],
"Hypothalamus mRNA": [
[
+ "564",
"GTEx_log2_Hypot_0314",
"GTEx Human Hypothalamus (Mar14) RPKM Log2"
],
[
+ "514",
"GTEx_Hypot_0414",
"GTEx Human Hypothalamus (Apr14) RPKM"
]
],
"Kidney mRNA": [
[
+ "565",
"GTEx_log2_Kidne_0314",
"GTEx Human Kidney (Mar14) RPKM Log2"
],
[
+ "515",
"GTEx_Kidne_0414",
"GTEx Human Kidney (Apr14) RPKM"
]
],
"Liver mRNA": [
[
+ "566",
"GTEx_log2_Liver_0314",
"GTEx Human Liver (Mar14) RPKM Log2"
],
[
+ "516",
"GTEx_Liver_0414",
"GTEx Human Liver (Apr14) RPKM"
]
],
"Lung mRNA": [
[
+ "567",
"GTEx_log2_Lung_0314",
"GTEx Human Lung (Mar14) RPKM Log2"
],
[
+ "517",
"GTEx_Lung _0414",
"GTEx Human Lung (Apr14) RPKM"
]
],
"Muscle mRNA": [
[
+ "568",
"GTEx_log2_Muscle_0314",
"GTEx Human Muscle (Mar14) RPKM Log2"
],
[
+ "518",
"GTEx_Muscl_0414",
"GTEx Human Muscle (Apr14) RPKM"
]
],
"Nerve - Tibial mRNA": [
[
+ "569",
"GTEx_log2_Nerve_0314",
"GTEx Human Nerve - Tibial (Mar14) RPKM Log2"
],
[
+ "519",
"GTEx_Nerve_0414",
"GTEx Human Nerve - Tibial (Apr14) RPKM"
]
],
"Nucleus Accumbens mRNA": [
[
+ "570",
"GTEx_log2_Nucle_0314",
"GTEx Human Nucleus Accumbens (Mar14) RPKM Log2"
],
[
+ "520",
"GTEx_Nucle_0414",
"GTEx Human Nucleus Accumbens (Apr14) RPKM"
]
],
"Ovary mRNA": [
[
+ "571",
"GTEx_log2_Ovary_0314",
"GTEx Human Ovary (Mar14) RPKM Log2"
],
[
+ "521",
"GTEx_Ovary_0414",
"GTEx Human Ovary (Apr14) RPKM"
]
],
"Pancreas mRNA": [
[
+ "572",
"GTEx_log2_Pancr_0314",
"GTEx Human Pancreas (Mar14) RPKM Log2"
],
[
+ "522",
"GTEx_Pancr_0414",
"GTEx Human Pancreas (Apr14) RPKM"
]
],
"Pituitary Gland mRNA": [
[
+ "573",
"GTEx_log2_Pitui_0314",
"GTEx Human Pituitary (Mar14) RPKM Log2"
],
[
+ "523",
"GTEx_Pitui_0414",
"GTEx Human Pituitary (Apr14) RPKM"
]
],
"Prostate mRNA": [
[
+ "574",
"GTEx_log2_Prost_0314",
"GTEx Human Prostate (Mar14) RPKM Log2"
],
[
+ "524",
"GTEx_Prost_0414",
"GTEx Human Prostate (Apr14) RPKM"
]
],
"Putamen mRNA": [
[
+ "575",
"GTEx_log2_Putam_0314",
"GTEx Human Putamen (Mar14) RPKM Log2"
],
[
+ "525",
"GTEx_Putam_0414",
"GTEx Human Putamen (Apr14) RPKM"
]
],
"Skin - Not Sun Exposed (Suprapubic) mRNA": [
[
+ "576",
"GTEx_log2_SkinN_0314",
"GTEx Human Skin-Not Sun Exposed (Suprapubic) (Mar14) RPKM Log2"
],
[
+ "526",
"GTEx_SkinN_0414",
"GTEx Human Skin-Not Sun Exposed (Suprapubic) (Apr14) RPKM"
]
],
"Skin - Sun Exposed (Lower leg) mRNA": [
[
+ "577",
"GTEx_log2_SkinE_0314",
"GTEx Human Skin-Sun Exposed (Lower leg) (Mar14) RPKM Log2"
],
[
+ "527",
"GTEx_SkinE_0414",
"GTEx Human Skin-Sun Exposed (Lower leg) (Apr14) RPKM"
]
],
"Spinal Cord mRNA": [
[
+ "578",
"GTEx_log2_Spina_0314",
"GTEx Human Spinal Cord (Mar14) RPKM Log2"
],
[
+ "528",
"GTEx_Spina_0414",
"GTEx Human Spinal Cord (Apr14) RPKM"
]
],
"Stomach mRNA": [
[
+ "579",
"GTEx_log2_Stoma_0314",
"GTEx Human Stomach (Mar14) RPKM Log2"
],
[
+ "529",
"GTEx_Stoma_0414",
"GTEx Human Stomach (Apr14) RPKM"
]
],
"Subcutaneous mRNA": [
[
+ "580",
"GTEx_log2_Subcu_0314",
"GTEx Human Subcutaneous (Mar14) RPKM Log2"
],
[
+ "530",
"GTEx_Subcu_0414",
"GTEx Human Subcutaneous (Apr14) RPKM"
]
],
"Substantia Nigra mRNA": [
[
+ "581",
"GTEx_log2_Subst_0314",
"GTEx Human Substantia Nigra (Mar14) RPKM Log2"
],
[
+ "531",
"GTEx_Subst_0414",
"GTEx Human Substantia Nigra (Apr14) RPKM"
]
],
"Testis mRNA": [
[
+ "582",
"GTEx_log2_Testi_0314",
"GTEx Human Testis (Mar14) RPKM Log2"
],
[
+ "532",
"GTEx_Testi_0414",
"GTEx Human Testis (Apr14) RPKM"
]
],
"Thyroid mRNA": [
[
+ "583",
"GTEx_log2_Thyro_0314",
"GTEx Human Thyroid (Mar14) RPKM Log2"
],
[
+ "533",
"GTEx_Thyro_0414",
"GTEx Human Thyroid (Apr14) RPKM"
]
],
"Tibial mRNA": [
[
+ "584",
"GTEx_log2_Tibial_0314",
"GTEx Human Tibial (Mar14) RPKM Log2"
],
[
+ "534",
"GTEx_Tibia_0414",
"GTEx Human Tibial (Apr14) RPKM"
]
],
"Uterus mRNA": [
[
+ "585",
"GTEx_log2_Uterus_0314",
"GTEx Human Uterus (Mar14) RPKM Log2"
],
[
+ "535",
"GTEx_Uteru_0414",
"GTEx Human Uterus (Apr14) RPKM"
]
],
"Vagina mRNA": [
[
+ "586",
"GTEx_log2_Vagin_0314",
"GTEx Human Vagina (Mar14) RPKM Log2"
],
[
+ "536",
"GTEx_Vagin_0414",
"GTEx Human Vagina (Apr14) RPKM"
]
],
"Visceral mRNA": [
[
+ "587",
"GTEx_log2_Visce_0314",
"GTEx Human Visceral (Mar14) RPKM Log2"
],
[
+ "537",
"GTEx_Visce_0414",
"GTEx Human Visceral (Apr14) RPKM"
]
],
"Whole Blood mRNA": [
[
+ "588",
"GTEx_log2_WholeB_0314",
"GTEx Human Whole Blood (Mar14) RPKM Log2"
],
[
+ "538",
"GTEx_Whole_0414",
"GTEx Human Whole Blood (Apr14) RPKM"
]
@@ -746,54 +873,66 @@
"HB": {
"Cerebellum mRNA": [
[
+ "326",
"HBTRC-MLC_0611",
"HBTRC-MLC Human Cerebellum Agilent (Jun11) mlratio"
],
[
+ "361",
"HBTRC-MLC_N_0611",
"HBTRC-MLC Human Cerebellum Agilent Normal (Jun11) mlratio"
],
[
+ "362",
"HBTRC-MLC_AD_0611",
"HBTRC-MLC Human Cerebellum Agilent AD (Jun11) mlratio"
],
[
+ "363",
"HBTRC-MLC_HD_0611",
"HBTRC-MLC Human Cerebellum Agilent HD (Jun11) mlratio"
]
],
"Prefrontal Cortex mRNA": [
[
+ "328",
"HBTRC-MLPFC_0611",
"HBTRC-MLC Human Prefrontal Cortex Agilent (Jun11) mlratio"
],
[
+ "367",
"HBTRC-MLPFC_N_0611",
"HBTRC-MLC Human Prefrontal Cortex Agilent Normal (Jun11) mlratio"
],
[
+ "368",
"HBTRC-MLPFC_AD_0611",
"HBTRC-MLC Human Prefrontal Cortex Agilent AD (Jun11) mlratio"
],
[
+ "369",
"HBTRC-MLPFC_HD_0611",
"HBTRC-MLC Human Prefrontal Cortex Agilent HD (Jun11) mlratio"
]
],
"Primary Visual Cortex mRNA": [
[
+ "327",
"HBTRC-MLVC_0611",
"HBTRC-MLC Human Visual Cortex Agilent (Jun11) mlratio"
],
[
+ "364",
"HBTRC-MLVC_N_0611",
"HBTRC-MLC Human Visual Cortex Agilent Normal (Jun11) mlratio"
],
[
+ "365",
"HBTRC-MLVC_AD_0611",
"HBTRC-MLC Human Visual Cortex Agilent AD (Jun11) mlratio"
],
[
+ "366",
"HBTRC-MLVC_HD_0611",
"HBTRC-MLC Human Visual Cortex Agilent HD (Jun11) mlratio"
]
@@ -810,14 +949,17 @@
"HLC": {
"Liver mRNA": [
[
+ "320",
"HLC_0311",
"GSE9588 Human Liver Normal (Mar11) Both Sexes"
],
[
+ "383",
"HLCM_0311",
"GSE9588 Human Liver Normal (Mar11) Males"
],
[
+ "384",
"HLCF_0311",
"GSE9588 Human Liver Normal (Mar11) Females"
]
@@ -832,18 +974,22 @@
"HLT": {
"Lung mRNA": [
[
+ "455",
"GSE23546HLT0613",
"Super Series GSE23546 Whole-Genome GXD Non-Tumorous Human Lung Tissues Affy HuRSTA array (Jun11) RMA"
],
[
+ "452",
"luCA_GSE23352HLT0613",
"UL/GSE23352 Whole-Genome GXD Non-Tumorous Human Lung Tissues Affy HuRSTA (Jun11) RMA"
],
[
+ "453",
"UBC-GSE23529HLT0613",
"UBC/GSE23529 Whole-Genome GXD Non-Tumorous Human Lung Tissues Affy HuRSTA array (Jun11) RMA"
],
[
+ "454",
"GRNG-GSE23545HLT0613",
"GRNG/GSE23545 Whole-Genome GXD Non-Tumorous Human Lung Tissues Affy HuRSTA array (Jun11) RMA"
]
@@ -852,96 +998,112 @@
"HSB": {
"Amygdala mRNA": [
[
+ "330",
"KIN_YSM_AMY_0711",
"GN330 Human Amygdala Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Cerebellar Cortex mRNA": [
[
+ "331",
"KIN_YSM_CBC_0711",
"Human Cerebellar Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Dorsolateral Prefrontal Cortex mRNA": [
[
+ "333",
"KIN_YSM_DFC_0711",
"Human Dorsolateral Prefrontal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Hippocampus mRNA": [
[
+ "337",
"KIN_YSM_HIP_0711",
"Human Hippocampus Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Inferior Temporal Cortex mRNA": [
[
+ "339",
"KIN_YSM_ITC_0711",
"Human Inferior Temporal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Medial Prefrontal Cortex mRNA": [
[
+ "343",
"KIN_YSM_MFC_0711",
"Human Medial Prefrontal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Mediodorsal Nucleus of Thalamus mRNA": [
[
+ "342",
"KIN_YSM_MD_0711",
"Human Mediodorsal Nucleus of Thalamus Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Orbital Prefrontal Cortex mRNA": [
[
+ "347",
"KIN_YSM_OFC_0711",
"Human Orbital Prefrontal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Posterior Inferior Parietal Cortex mRNA": [
[
+ "338",
"KIN_YSM_IPC_0711",
"Human Posterior Inferior Parietal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Posterior Superior Temporal Cortex mRNA": [
[
+ "350",
"KIN_YSM_STC_0711",
"Human Posterior Superior Temporal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Primary Auditory (A1) Cortex mRNA": [
[
+ "329",
"KIN_YSM_A1C_0711",
"Human Primary Auditory (A1) Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Primary Motor (M1) Cortex mRNA": [
[
+ "341",
"KIN_YSM_M1C_0711",
"Human Primary Motor (M1) Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Primary Somatosensory (S1) Cortex mRNA": [
[
+ "349",
"KIN_YSM_S1C_0711",
"Human Primary Somatosensory (S1) Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Primary Visual Cortex mRNA": [
[
+ "354",
"KIN_YSM_V1C_0711",
"Human Primary Visual Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Striatum mRNA": [
[
+ "351",
"KIN_YSM_STR_0711",
"Human Striatum Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
],
"Ventrolateral Prefrontal Cortex mRNA": [
[
+ "356",
"KIN_YSM_VFC_0711",
"Human Ventrolateral Prefrontal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile"
]
@@ -952,30 +1114,35 @@
"Macaca-fasicularis": {
"Amygdala mRNA": [
[
+ "255",
"INIA_MacFas_AMG_RMA_0110",
"INIA Macaca fasicularis Amygdala (Jan10) RMA **"
]
],
"Brain mRNA": [
[
+ "251",
"INIA_MacFas_brain_RMA_0110",
"INIA Macaca fasicularis Brain (Jan10) RMA **"
]
],
"Hippocampus mRNA": [
[
+ "254",
"INIA_MacFas_Hc_RMA_0110",
"INIA Macaca fasicularis Hippocampus (Jan10) RMA **"
]
],
"Nucleus Accumbens mRNA": [
[
+ "253",
"INIA_MacFas_Ac_RMA_0110",
"INIA Macaca fasicularis Nucleus Accumbens (Jan10) RMA **"
]
],
"Prefrontal Cortex mRNA": [
[
+ "252",
"INIA_MacFas_Pf_RMA_0110",
"INIA Macaca fasicularis Prefrontal Cortex (Jan10) RMA **"
]
@@ -992,28 +1159,33 @@
],
"Mammary Tumors mRNA": [
[
+ "224",
"NCI_Agil_Mam_Tum_RMA_0409",
"NCI Mammary LMT miRNA v2 (Apr09) RMA"
],
[
- "MA_M_0704_M",
- "NCI Mammary mRNA M430 (July04) MAS5"
- ],
- [
+ "37",
"MA_M_0704_R",
"NCI Mammary mRNA M430 (July04) RMA"
+ ],
+ [
+ "36",
+ "MA_M_0704_M",
+ "NCI Mammary mRNA M430 (July04) MAS5"
]
]
},
"AXBXA": {
"Bone Femur mRNA": [
[
+ "411",
"UCLA_AXB/BXA_Femur_0113_RSN",
"UCLA GSE27483 AXB/BXA Bone Femur ILM Mouse WG-6 v1, v1.1 (Jan13) RSN"
]
],
"Eye mRNA": [
[
+ "210",
"Eye_AXBXA_1008_RankInv",
"Eye AXBXA Illumina V6.2(Oct08) RankInv Beta"
]
@@ -1026,12 +1198,14 @@
],
"Heart mRNA": [
[
+ "421",
"IRCM_AXBXA_HRI0213",
"IRCM AXB/BXA Mouse Heart ILM MouseRef-8 v2.0 (Feb13) RankInv"
]
],
"Liver mRNA": [
[
+ "352",
"GSE16780AB_UCLA_ML0911",
"GSE16780 UCLA Mouse AXB/BXA Liver Affy HT M430A (Sep11) RMA"
]
@@ -1052,12 +1226,14 @@
],
"Liver mRNA": [
[
- "LVF2_M_0704_M",
- "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5"
- ],
- [
+ "39",
"LVF2_M_0704_R",
"(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA"
+ ],
+ [
+ "38",
+ "LVF2_M_0704_M",
+ "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5"
]
],
"Phenotypes": [
@@ -1070,28 +1246,34 @@
"B6D2F2": {
"Brain mRNA": [
[
+ "76",
+ "BRF2_M_0805_M",
+ "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5"
+ ],
+ [
+ "78",
"BRF2_M_0805_P",
"OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN"
],
[
+ "77",
"BRF2_M_0805_R",
"OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA"
],
[
- "BRF2_M_0805_M",
- "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5"
- ],
- [
+ "33",
"BRF2_M_0304_P",
"OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN"
],
[
- "BRF2_M_0304_M",
- "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5"
- ],
- [
+ "32",
"BRF2_M_0304_R",
"OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA"
+ ],
+ [
+ "31",
+ "BRF2_M_0304_M",
+ "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5"
]
],
"Genotypes": [
@@ -1110,18 +1292,22 @@
],
"Muscle mRNA": [
[
+ "134",
"PSU-B6D2F2_0812",
"PSU B6D2F2 Muscle Affy Mouse Genome 430 2.0 (Aug12) RMA **"
],
[
+ "404",
"PSU-B6D2F2_F0812",
"PSU B6D2F2 Muscle Affy Mouse Genome 430 2.0 (Aug12) RMA Females **"
],
[
+ "405",
"PSU-B6D2F2_M0812",
"PSU B6D2F2 Muscle Affy Mouse Genome 430 2.0 (Aug12) RMA Males **"
],
[
+ "406",
"PSU-B6D2F2_M2000812",
"PSU B6D2F2 Muscle Affy Mouse Genome 430 2.0 (Aug12) RMA Males Aged 200 **"
]
@@ -1130,6 +1316,7 @@
"B6D2RI": {
"Hippocampus mRNA": [
[
+ "391",
"UTHSC_B6D2RI_H_0912",
"UTHSC B6D2RI Aged Hippocampus Affy Mouse Gene 1.0 ST (Sep12) RMA **"
]
@@ -1144,6 +1331,7 @@
],
"Liver mRNA": [
[
+ "169",
"UCLA_BDF2_LIVER_1999",
"UCLA BDF2 Liver (1999) mlratio"
]
@@ -1158,44 +1346,53 @@
],
"Striatum mRNA": [
[
+ "84",
+ "SA_M2_0905_R",
+ "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA"
+ ],
+ [
+ "83",
"SA_M2_0905_M",
"OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5"
],
[
+ "85",
"SA_M2_0905_P",
"OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN"
- ],
- [
- "SA_M2_0905_R",
- "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA"
]
]
},
"BHF2": {
"Adipose mRNA": [
[
- "UCLA_BHF2_ADIPOSE_FEMALE",
- "UCLA BHF2 Adipose Female mlratio"
- ],
- [
+ "196",
"UCLA_BHF2_ADIPOSE_MALE",
"UCLA BHF2 Adipose Male mlratio"
],
[
+ "197",
+ "UCLA_BHF2_ADIPOSE_FEMALE",
+ "UCLA BHF2 Adipose Female mlratio"
+ ],
+ [
+ "165",
"UCLA_BHF2_ADIPOSE_0605",
"UCLA BHF2 Adipose (June05) mlratio"
]
],
"Brain mRNA": [
[
- "UCLA_BHF2_BRAIN_FEMALE",
- "UCLA BHF2 Brain Female mlratio"
- ],
- [
+ "198",
"UCLA_BHF2_BRAIN_MALE",
"UCLA BHF2 Brain Male mlratio"
],
[
+ "199",
+ "UCLA_BHF2_BRAIN_FEMALE",
+ "UCLA BHF2 Brain Female mlratio"
+ ],
+ [
+ "166",
"UCLA_BHF2_BRAIN_0605",
"UCLA BHF2 Brain (June05) mlratio"
]
@@ -1208,28 +1405,34 @@
],
"Liver mRNA": [
[
- "UCLA_BHF2_LIVER_FEMALE",
- "UCLA BHF2 Liver Female mlratio"
- ],
- [
+ "200",
"UCLA_BHF2_LIVER_MALE",
"UCLA BHF2 Liver Male mlratio"
],
[
+ "201",
+ "UCLA_BHF2_LIVER_FEMALE",
+ "UCLA BHF2 Liver Female mlratio"
+ ],
+ [
+ "167",
"UCLA_BHF2_LIVER_0605",
"UCLA BHF2 Liver (June05) mlratio"
]
],
"Muscle mRNA": [
[
- "UCLA_BHF2_MUSCLE_FEMALE",
- "UCLA BHF2 Muscle Female mlratio **"
- ],
- [
+ "202",
"UCLA_BHF2_MUSCLE_MALE",
"UCLA BHF2 Muscle Male mlratio **"
],
[
+ "203",
+ "UCLA_BHF2_MUSCLE_FEMALE",
+ "UCLA BHF2 Muscle Female mlratio **"
+ ],
+ [
+ "168",
"UCLA_BHF2_MUSCLE_0605",
"UCLA BHF2 Muscle (June05) mlratio **"
]
@@ -1238,28 +1441,34 @@
"BHHBF2": {
"Adipose mRNA": [
[
+ "174",
"UCLA_BHHBF2_ADIPOSE_2005",
"UCLA BHHBF2 Adipose (2005) mlratio"
],
[
+ "180",
"UCLA_BHHBF2_ADIPOSE_MALE",
"UCLA BHHBF2 Adipose Male Only"
],
[
+ "181",
"UCLA_BHHBF2_ADIPOSE_FEMALE",
"UCLA BHHBF2 Adipose Female Only"
]
],
"Brain mRNA": [
[
+ "175",
"UCLA_BHHBF2_BRAIN_2005",
"UCLA BHHBF2 Brain (2005) mlratio"
],
[
+ "182",
"UCLA_BHHBF2_BRAIN_MALE",
"UCLA BHHBF2 Brain Male Only"
],
[
+ "183",
"UCLA_BHHBF2_BRAIN_FEMALE",
"UCLA BHHBF2 Brain Female Only"
]
@@ -1272,28 +1481,34 @@
],
"Liver mRNA": [
[
+ "176",
"UCLA_BHHBF2_LIVER_2005",
"UCLA BHHBF2 Liver (2005) mlratio"
],
[
+ "184",
"UCLA_BHHBF2_LIVER_MALE",
"UCLA BHHBF2 Liver Male Only"
],
[
+ "185",
"UCLA_BHHBF2_LIVER_FEMALE",
"UCLA BHHBF2 Liver Female Only"
]
],
"Muscle mRNA": [
[
+ "177",
"UCLA_BHHBF2_MUSCLE_2005",
"UCLA BHHBF2 Muscle (2005) mlratio"
],
[
+ "186",
"UCLA_BHHBF2_MUSCLE_MALE",
"UCLA BHHBF2 Muscle Male Only"
],
[
+ "187",
"UCLA_BHHBF2_MUSCLE_FEMALE",
"UCLA BHHBF2 Muscle Female Only"
]
@@ -1302,250 +1517,308 @@
"BXD": {
"Adipose mRNA": [
[
+ "469",
"EPFLADGL1013",
"EPFL/LISP BXD CD Brown Adipose Affy Mouse Gene 2.0 ST Gene Level (Oct13) RMA"
],
[
+ "470",
"EPFLADEL1013",
"EPFL/LISP BXD CD Brown Adipose Affy Mouse Gene 2.0 ST Exon Level (Oct13) RMA"
]
],
"Adrenal Gland mRNA": [
[
+ "388",
"INIA_Adrenal_RMA_0612",
"INIA Adrenal Affy MoGene 1.0ST (Jun12) RMA"
],
[
+ "426",
"INIA_Adrenal_RMA_F_0612",
"INIA Adrenal Affy MoGene 1.0ST (Jun12) RMA Females"
],
[
+ "425",
"INIA_Adrenal_RMA_M_0612",
"INIA Adrenal Affy MoGene 1.0ST (Jun12) RMA Males"
],
[
+ "334",
"INIA_Adrenal_RMA_Ex_0612",
"INIA Adrenal Affy MoGene 1.0ST (Jun12) RMA Exon Level"
]
],
"Amygdala mRNA": [
[
+ "323",
"INIA_AmgCoh_0311",
"INIA Amygdala Cohort Affy MoGene 1.0 ST (Mar11) RMA"
],
[
+ "280",
"INIA_Amg_BLA_RMA_1110",
"INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA"
],
[
+ "316",
"INIA_Amg_BLA_RMA_M_1110",
"INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA Male"
],
[
+ "315",
"INIA_Amg_BLA_RMA_F_1110",
"INIA Amygdala Affy MoGene 1.0 ST (Nov10) RMA Female"
],
[
+ "158",
"INIA_Amg_BLA_Ex-RMA_1110",
"INIA Amygdala Exon Affy MoGene 1.0 ST (Nov10) RMA"
]
],
"Bone Femur mRNA": [
[
+ "410",
"UCLA_BXD_Femur_0113_RSN",
"UCLA GSE27483 BXD Bone Femur ILM Mouse WG-6 v1, v1.1 (Jan13) RSN"
],
[
+ "414",
"UCLA_BXD-on_Femur_0113_RSN",
"UCLA GSE27483 BXD Only Bone Femur ILM Mouse WG-6 v2.0 (Jan13) RSN"
],
[
+ "464",
"UTHSCWGU88BFMG1013",
"UTHSC WGU88 Male Bone Femur AFFY Mouse Gene ST 2.0 Gene Level (Oct13) RMA **"
],
[
+ "465",
"UTHSCWGU88BFMEx1013",
"UTHSC WGU88 Male Bone Femur AFFY Mouse Gene ST 2.0 Exon Level (Oct13) RMA **"
],
[
+ "466",
"UTHSCWGU88BFFG1013",
"UTHSC WGU88 Female Bone Femur AFFY Mouse Gene ST 2.0 Gene Level (Oct13) RMA **"
],
[
+ "467",
"UTHSCWGU88BFFEx1013",
"UTHSC WGU88 Female Bone Femur AFFY Mouse Gene ST 2.0 Exon Level (Oct13) RMA **"
]
],
"Brain mRNA": [
[
+ "589",
"UTHSC_BXD_WB_RNASeqtrim1112",
"UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Trimmed 2.0"
],
[
- "UTHSC_BXD_WB_RNASeqtrim1_1112",
- "UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Trimmed 1.0"
- ],
- [
+ "164",
"UTHSC_BXD_WB_RNASeq1112",
"UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Untrimmed"
],
[
+ "590",
+ "UTHSC_BXD_WB_RNASeqtrim1_1112",
+ "UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Trimmed 1.0"
+ ],
+ [
+ "394",
"UTHSC_BXD_WB_RNASeqEx1112",
"UTHSC Mouse BXD Whole Brain RNA Sequence Exon Level (Nov12) RPKM"
],
[
+ "123",
"BR_M2_1106_R",
"UCHSC BXD Whole Brain M430 2.0 (Nov06) RMA"
],
[
+ "95",
"BR_U_1105_P",
"UTHSC Brain mRNA U74Av2 (Nov05) PDNN"
],
[
- "BR_U_0805_P",
- "UTHSC Brain mRNA U74Av2 (Aug05) PDNN"
- ],
- [
+ "80",
"BR_U_0805_M",
"UTHSC Brain mRNA U74Av2 (Aug05) MAS5"
],
[
+ "82",
"BR_U_0805_R",
"UTHSC Brain mRNA U74Av2 (Aug05) RMA"
],
[
+ "81",
+ "BR_U_0805_P",
+ "UTHSC Brain mRNA U74Av2 (Aug05) PDNN"
+ ],
+ [
+ "42",
"CB_M_0204_P",
"INIA Brain mRNA M430 (Feb04) PDNN"
]
],
"Cartilage mRNA": [
[
+ "208",
"UCLA_BXDBXH_CARTILAGE_V2",
"UCLA BXD and BXH Cartilage v2"
],
[
+ "204",
"UCLA_BXDBXH_CARTILAGE",
"UCLA BXD and BXH Cartilage"
],
[
+ "178",
"UCLA_BXD_CARTILAGE",
"UCLA BXD Cartilage"
]
],
"Cerebellum mRNA": [
[
+ "46",
"CB_M_1004_R",
"SJUT Cerebellum mRNA M430 (Oct04) RMA"
],
[
+ "45",
"CB_M_1004_P",
"SJUT Cerebellum mRNA M430 (Oct04) PDNN"
],
[
+ "44",
"CB_M_1004_M",
"SJUT Cerebellum mRNA M430 (Oct04) MAS5"
],
[
+ "9",
"CB_M_1003_M",
"SJUT Cerebellum mRNA M430 (Oct03) MAS5"
],
[
+ "436",
"CMMTUBCBXDCerILM0513",
"UBC/CMMT BXD Cerebellum All Ages Combined ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "441",
"CMMTUBCBXDG12CerILM0513",
"UBC/CMMT BXD E12 Cerebellum ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "442",
"CMMTUBCBXDG15CerILM0513",
"UBC/CMMT BXD E15 Cerebellum ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "443",
"CMMTUBCBXDG18CerILM0513",
"UBC/CMMT BXD E18 Cerebellum ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "437",
"CMMTUBCBXDP00CerILM0513",
"UBC/CMMT BXD P0 Cerebellum ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "438",
"CMMTUBCBXDP03CerILM0513",
"UBC/CMMT BXD P3 Cerebellum ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "439",
"CMMTUBCBXDP06CerILM0513",
"UBC/CMMT BXD P6 Cerebellum ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "440",
"CMMTUBCBXDP09CerILM0513",
"UBC/CMMT BXD P9 Cerebellum ILM Mouse WG-6 v2.0 (May13) RankInv **"
],
[
+ "415",
"GenEx_BXD_CerebEt_RMA_0213",
"GenEx BXD EtOH Cerebellum Affy M430 2.0 (Feb13) RMA Both Sexes **"
],
[
+ "416",
"GenEx_BXD_CerebEt_RMA_F_0213",
"GenEx BXD EtOH Cerebellum Affy M430 2.0 (Feb13) RMA Females **"
],
[
+ "417",
"GenEx_BXD_CerebEt_RMA_M_0213",
"GenEx BXD EtOH Cerebellum Affy M430 2.0 (Feb13) RMA Males **"
],
[
+ "418",
"GenEx_BXD_CerebSal_RMA_0213",
"GenEx BXD Sal Cerebellum Affy M430 2.0 (Feb13) RMA Both Sexes **"
],
[
+ "419",
"GenEx_BXD_CerebSal_RMA_F_0213",
"GenEx BXD Sal Cerebellum Affy M430 2.0 (Feb13) RMA Females **"
],
[
+ "420",
"GenEx_BXD_CerebSal_RMA_M_0213",
"GenEx BXD Sal Cerebellum Affy M430 2.0 (Feb13) RMA Males **"
]
],
"Eye mRNA": [
[
+ "207",
"Eye_M2_0908_R",
"Eye M430v2 (Sep08) RMA"
],
[
+ "10",
"gn10",
"Eye M430v2 No Mutant/Mutant (Aug12) RMA **"
],
[
+ "261",
"Eye_M2_0908_R_NB",
"Eye M430v2 Mutant Gpnmb (Sep08) RMA **"
],
[
+ "262",
"Eye_M2_0908_R_ND",
"Eye M430v2 WT Gpnmb (Sep08) RMA **"
],
[
+ "278",
+ "Eye_M2_0908_R_MT",
+ "Eye M430v2 Mutant Tyrp1 (Sep08) RMA **"
+ ],
+ [
+ "382",
"Eye_M2_0908_WTWT",
"Eye M430v2 WT WT (Sep08) RMA **"
],
[
+ "279",
"Eye_M2_0908_R_WT",
"Eye M430v2 WT Tyrp1 (Sep08) RMA **"
],
[
- "Eye_M2_0908_R_MT",
- "Eye M430v2 Mutant Tyrp1 (Sep08) RMA **"
- ],
- [
+ "400",
"DBA2J-ONH-1212",
"Howell et al. 2011, DBA/2J Glaucoma Optic Nerve Head M430 2.0 (Dec12) RMA"
],
[
+ "360",
"BXD_GLA_0911",
"Howell et al. 2011, DBA/2J Glaucoma Retina M430 2.0 (Sep11) RMA"
]
],
"Gastrointestinal mRNA": [
[
+ "539",
"UTHSC_GutGL_0414",
"UTHSC Mouse BXD Gastrointestinal Affy MoGene 1.0 ST Gene Level (Apr14) RMA **"
]
@@ -1558,408 +1831,502 @@
],
"Heart mRNA": [
[
+ "485",
"EPFL-LISPBXDHeCD0114",
"EPFL/LISP BXD CD Heart Affy Mouse Gene 2.0 ST Gene Level (Jan14) RMA **"
],
[
+ "486",
"EPFL-LISPBXDHeHFD0114",
"EPFL/LISP BXD HFD Heart Affy Mouse Gene 2.0 ST Gene Level (Jan14) RMA **"
],
[
+ "487",
"EPFL-LISPBXDHeCDEx0114",
"EPFL/LISP BXD CD Heart Affy Mouse Gene 2.0 ST Exon Level (Jan14) RMA **"
],
[
+ "488",
"EPFL-LISPBXDHeHFDEx0114",
"EPFL/LISP BXD HFD Heart Affy Mouse Gene 2.0 ST Exon Level (Jan14) RMA **"
]
],
"Hematopoietic Cells mRNA": [
[
+ "149",
"UMCG_0907_HemaStem_ori",
"UMCG Stem Cells ILM6v1.1 (Apr09) original"
],
[
+ "145",
"UMCG_0907_HemaStem",
"UMCG Stem Cells ILM6v1.1 (Apr09) transformed"
],
[
+ "151",
"UMCG_0907_Pro_ori",
"UMCG Progenitor Cells ILM6v1.1 (Apr09) original"
],
[
+ "147",
"UMCG_0907_Pro",
"UMCG Progenitor Cells ILM6v1.1 (Apr09) transformed"
],
[
+ "150",
"UMCG_0907_Eryth_ori",
"UMCG Erythroid Cells ILM6v1.1 (Apr09) original"
],
[
+ "146",
"UMCG_0907_Eryth",
"UMCG Erythroid Cells ILM6v1.1 (Apr09) transformed"
],
[
+ "148",
"UMCG_0907_Myeloid_ori",
"UMCG Myeloid Cells ILM6v1.1 (Apr09) original"
],
[
+ "144",
"UMCG_0907_Myeloid",
"UMCG Myeloid Cells ILM6v1.1 (Apr09) transformed"
],
[
+ "7",
"HC_U_0304_R",
"GNF Stem Cells U74Av2 (Mar04) RMA"
]
],
"Hippocampus mRNA": [
[
+ "112",
"HC_M2_0606_P",
"Hippocampus Consortium M430v2 (Jun06) PDNN"
],
[
+ "111",
"HC_M2_0606_M",
"Hippocampus Consortium M430v2 (Jun06) MAS5"
],
[
+ "110",
"HC_M2_0606_R",
"Hippocampus Consortium M430v2 (Jun06) RMA"
],
[
+ "291",
"UT_ILM_BXD_hipp_5T_1112",
"UTHSC Hippocampus Illumina v6.1 All Combined (Nov12) RankInv"
],
[
+ "292",
"UT_ILM_BXD_hipp_NON_1112",
"UTHSC Hippocampus Illumina v6.1 NON (Nov12) RankInv"
],
[
+ "293",
"UT_ILM_BXD_hipp_NOS_1112",
"UTHSC Hippocampus Illumina v6.1 NOS (Nov12) RankInv"
],
[
+ "294",
"UT_ILM_BXD_hipp_NOE_1112",
"UTHSC Hippocampus Illumina v6.1 NOE (Nov12) RankInv"
],
[
+ "295",
"UT_ILM_BXD_hipp_RSS_1112",
"UTHSC Hippocampus Illumina v6.1 RSS (Nov12) RankInv"
],
[
- "UT_ILM_BXD_hipp_RSE_1112",
- "UTHSC Hippocampus Illumina v6.1 RSE (Nov12) RankInv"
- ],
- [
+ "206",
"UMUTAffyExon_0209_RMA",
"UMUTAffy Hippocampus Exon (Feb09) RMA"
],
[
+ "296",
+ "UT_ILM_BXD_hipp_RSE_1112",
+ "UTHSC Hippocampus Illumina v6.1 RSE (Nov12) RankInv"
+ ],
+ [
+ "242",
"UT_ILM_BXD_hipp_NON_0909",
"UTHSC Hippocampus Illumina v6.1 NON (Sep09) RankInv"
],
[
+ "243",
"UT_ILM_BXD_hipp_NOS_0909",
"UTHSC Hippocampus Illumina v6.1 NOS (Sep09) RankInv"
],
[
+ "246",
"UT_ILM_BXD_hipp_NOE_0909",
"UTHSC Hippocampus Illumina v6.1 NOE (Sep09) RankInv"
],
[
+ "244",
"UT_ILM_BXD_hipp_RSS_0909",
"UTHSC Hippocampus Illumina v6.1 RSS (Sep09) RankInv"
],
[
+ "245",
"UT_ILM_BXD_hipp_RSE_0909",
"UTHSC Hippocampus Illumina v6.1 RSE (Sep09) RankInv"
],
[
+ "393",
"UTHSC_BXD_HArev3_0912",
"UTHSC BXD Aged Hippocampus rev3 Affy Mouse Gene 1.0 ST (Sep12) RMA **"
],
[
+ "392",
"UTHSC_BXD_H_0912",
"UTHSC BXD Aged Hippocampus Affy Mouse Gene 1.0 ST (Sep12) RMA Exon Level **"
]
],
"Hippocampus microRNA": [
[
+ "491",
"UTHSC_BXD_Hip_miRNASeq0214",
"UTHSC BXD Hippocampus Ion Torrent microRNA (Feb14) RPKM **"
]
],
"Hypothalamus mRNA": [
[
+ "281",
"INIA_Hyp_RMA_1110",
"INIA Hypothalamus Affy MoGene 1.0 ST (Nov10)"
],
[
+ "318",
"INIA_Hyp_M_RMA_1110",
"INIA Hypothalamus Affy MoGene 1.0 ST (Nov10) Male"
],
[
+ "317",
"INIA_Hyp_F_RMA_1110",
"INIA Hypothalamus Affy MoGene 1.0 ST (Nov10) Female"
],
[
+ "459",
"INIA_Hyp_PCA_0813_v4",
"INIA Hypothalamus Affy MoGene 1.0 ST (Nov10) PCA Test v080913"
],
[
+ "458",
"INIA_Hyp_PCA_0813_v3",
"INIA Hypothalamus Affy MoGene 1.0 ST (Nov10) PCA Test v080813"
],
[
+ "457",
"INIA_Hyp_PCA_0813_v2",
"INIA Hypothalamus Affy MoGene 1.0 ST (Nov10) PCA Test v080513"
],
[
+ "456",
"INIA_Hyp_PCA_0813",
"INIA Hypothalamus Affy MoGene 1.0 ST (Nov10) PCA Test v080213"
],
[
+ "159",
"INIA_Hyp_RMA_Ex-1110",
"INIA Hypothalamus Exon Affy MoGene 1.0 ST (Nov10)"
]
],
"Kidney mRNA": [
[
+ "240",
"MA_M2M_0706_R",
"Mouse kidney M430v2 Male (Aug06) RMA"
],
[
+ "239",
"MA_M2F_0706_R",
"Mouse kidney M430v2 Female (Aug06) RMA"
],
[
+ "118",
"MA_M2_0806_R",
"Mouse kidney M430v2 Sex Balanced (Aug06) RMA"
],
[
+ "117",
"MA_M2_0806_P",
"Mouse Kidney M430v2 Sex Balanced (Aug06) PDNN"
],
[
- "MA_M2_0706_R",
- "Mouse Kidney M430v2 (Jul06) RMA"
- ],
- [
+ "116",
"MA_M2_0706_P",
"Mouse Kidney M430v2 (Jul06) PDNN"
+ ],
+ [
+ "115",
+ "MA_M2_0706_R",
+ "Mouse Kidney M430v2 (Jul06) RMA"
]
],
"Leucocytes mRNA": [
[
+ "218",
"Illum_BXD_PBL_1108",
"UWA Illumina PBL (Nov08) RSN **"
]
],
"Liver Metabolome": [
[
+ "474",
"EPFL-LISP_LivPMetHFD1213",
"EPFL/LISP BXD Liver Polar Metabolites HFD (Jun14) **"
],
[
+ "475",
"EPFL-LISP_LivPMetCD1213",
"EPFL/LISP BXD Liver Polar Metabolites CD (Jun14) **"
]
],
"Liver Proteome": [
[
- "EPFLETHZBXDprotCD0514",
- "EPFL/ETHZ BXD Liver, Soluble Proteins CD (May14) SWATH **"
- ],
- [
+ "541",
"EPFLETHZBXDprotHFD0514",
"EPFL/ETHZ BXD Liver, Soluble Proteins HFD (May14) SWATH **"
],
[
+ "540",
+ "EPFLETHZBXDprotCD0514",
+ "EPFL/ETHZ BXD Liver, Soluble Proteins CD (May14) SWATH **"
+ ],
+ [
+ "489",
"EPFLBXDprotHFDRPN0214",
"EPFL/LISP BXD Liver, Soluble Proteins HFD (Feb14) SRM **"
],
[
+ "490",
"EPFLBXDprotCDRPN0214",
"EPFL/LISP BXD Liver, Soluble Proteins CD (Feb14) SRM **"
]
],
"Liver mRNA": [
[
+ "373",
"GSE16780_UCLA_ML0911",
"GSE16780 UCLA Hybrid MDP Liver Affy HT M430A (Sep11) RMA"
],
[
+ "325",
"SUH_Liv_RMA_0611",
"SUH BXD Liver CCl4-treated Affy Mouse Gene 1.0 ST (Jun11) RMA"
],
[
+ "430",
"EPFLMouseLiverRMA0413",
"EPFL/LISP BXD CD+HFD Liver Affy Mouse Gene 1.0 ST (Apr13) RMA"
],
[
+ "431",
"EPFLMouseLiverHFDRMA0413",
"EPFL/LISP BXD HFD Liver Affy Mouse Gene 1.0 ST (Apr13) RMA"
],
[
+ "432",
"EPFLMouseLiverCDRMA0413",
"EPFL/LISP BXD CD Liver Affy Mouse Gene 1.0 ST (Apr13) RMA"
],
[
+ "433",
"EPFLMouseLiverBothExRMA0413",
"EPFL/LISP BXD CD+HFD Liver Affy Mouse Gene 1.0 ST (Apr13) RMA Exon Level **"
],
[
+ "256",
"GenEx_BXD_liverEt_M5_0912",
"GenEx BXD EtOH Liver Affy M430 2.0 (Sep12) MAS5 Both Sexes **"
],
[
+ "257",
"GenEx_BXD_liverEt_M5M_0912",
"GenEx BXD EtOH Liver Affy M430 2.0 (Sep12) MAS5 Males **"
],
[
+ "258",
"GenEx_BXD_liverEt_M5F_0912",
"GenEx BXD EtOH Liver Affy M430 2.0 (Sep12) MAS5 Females **"
],
[
+ "307",
"GenEx_BXD_liverEt_RMA_0211",
"GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes **"
],
[
+ "308",
"GenEx_BXD_liverEt_RMA_M_0211",
"GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males **"
],
[
+ "309",
"GenEx_BXD_liverEt_RMA_F_0211",
"GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females **"
],
[
+ "310",
"GenEx_BXD_liverSal_RMA_0211",
"GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes **"
],
[
+ "311",
"GenEx_BXD_liverSal_RMA_M_0211",
"GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males **"
],
[
+ "312",
"GenEx_BXD_liverSal_RMA_F_0211",
"GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females **"
]
],
"Lung mRNA": [
[
+ "160",
"HZI_0408_R",
"HZI Lung M430v2 (Apr08) RMA"
],
[
+ "161",
"HZI_0408_M",
"HZI Lung M430v2 (Apr08) MAS5"
],
[
+ "468",
"HZI_PR8M-F_1113",
"HZI PR8M-Infected Lungs Females RNAseq (Nov13) RPKM **"
],
[
+ "387",
"HZI_PR8M_Q_0612",
"HZI PR8M-Infected Lungs Agilent4x44 (Apr12) Quantile Females **"
],
[
+ "424",
"HZI_LTCF_0313",
"HZI Lung Time Course Flu PR8M (Mar13) Schughart **"
]
],
"Midbrain mRNA": [
[
+ "381",
"VUBXDMouseMidBrainQ0512",
"VU BXD Midbrain Agilent SurePrint G3 Mouse GE (May12) Quantile"
]
],
"Muscle Metabolome": [
[
+ "477",
"EPFL-LISP_MusPMetHFD1213",
"EPFL/LISP BXD Muscle Polar Metabolites HFD (Jun14) **"
],
[
+ "478",
"EPFL-LISP_MusPMetCD1213",
"EPFL/LISP BXD Muscle Polar Metabolites CD (Jun14) **"
]
],
"Muscle mRNA": [
[
+ "395",
"EPFLMouseMuscleRMA_Ex1112",
"EPFL/LISP BXD CD+HFD Muscle Affy Mouse Gene 1.0 ST (Nov12) RMA Exon Level"
],
[
+ "396",
"EPFLMouseMuscleHFDRMAEx1112",
"EPFL/LISP BXD HFD Muscle Affy Mouse Gene 1.0 ST (Nov12) RMA Exon Level"
],
[
+ "397",
"EPFLMouseMuscleCDRMAEx1112",
"EPFL/LISP BXD CD Muscle Affy Mouse Gene 1.0 ST (Nov12) RMA Exon Level"
],
[
+ "378",
"EPFLMouseMuscleRMA1211",
"EPFL/LISP BXD CD+HFD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA"
],
[
+ "380",
"EPFLMouseMuscleHFDRMA1211",
"EPFL/LISP BXD HFD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA"
],
[
+ "379",
"EPFLMouseMuscleCDRMA1211",
"EPFL/LISP BXD CD Muscle Affy Mouse Gene 1.0 ST (Dec11) RMA"
]
],
"Neocortex mRNA": [
[
- "DevNeocortex_ILM6.2P3RInv_1111",
- "BIDMC/UTHSC Dev Neocortex P3 ILMv6.2 (Nov11) RankInv"
- ],
- [
+ "375",
"DevNeocortex_ILM6.2P14RInv_1111",
"BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov11) RankInv"
],
[
+ "374",
+ "DevNeocortex_ILM6.2P3RInv_1111",
+ "BIDMC/UTHSC Dev Neocortex P3 ILMv6.2 (Nov11) RankInv"
+ ],
+ [
+ "284",
"HQFNeoc_1210v2_RankInv",
"HQF BXD Neocortex ILM6v1.1 (Dec10v2) RankInv"
],
[
+ "282",
"HQFNeoc_1210_RankInv",
"HQF BXD Neocortex ILM6v1.1 (Dec10) RankInv"
],
[
+ "157",
"HQFNeoc_0208_RankInv",
"HQF BXD Neocortex ILM6v1.1 (Feb08) RankInv"
],
[
- "DevNeocortex_ILM6.2P14RInv_1110",
- "BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov10) RankInv"
- ],
- [
+ "274",
"DevNeocortex_ILM6.2P3RInv_1110",
"BIDMC/UTHSC Dev Neocortex P3 ILMv6.2 (Nov10) RankInv"
+ ],
+ [
+ "275",
+ "DevNeocortex_ILM6.2P14RInv_1110",
+ "BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov10) RankInv"
]
],
"Nucleus Accumbens mRNA": [
[
+ "156",
"VCUSalo_1007_R",
"VCU BXD NAc Sal M430 2.0 (Oct07) RMA"
],
[
+ "155",
"VCUEtOH_1007_R",
"VCU BXD NAc EtOH M430 2.0 (Oct07) RMA **"
],
[
+ "154",
"VCUSal_1007_R",
"VCU BXD NAc EtOH vs Sal M430 2.0 (Oct07) Sscore **"
],
[
+ "409",
"VCU_NAc_Air_0113_R",
"VCU BXD NAc CIE Air M430 2.0 (Jan13) RMA **"
],
[
+ "408",
"VCU_NAc_Et_0113_R",
"VCU BXD NAc CIE EtOH M430 2.0 (Jan13) RMA **"
],
[
+ "407",
"VCU_NAc_AvE_0113_Ss",
"VCU BXD NAc EtOH vs CIE Air M430 2.0 (Jan13) Sscore **"
]
@@ -1972,246 +2339,301 @@
],
"Pituitary Gland mRNA": [
[
+ "389",
"INIA_PG_RMA_0612",
"INIA Pituitary Affy MoGene 1.0ST (Jun12) RMA"
],
[
+ "427",
"INIA_Pituitary_RMA_F_0612",
"INIA Pituitary Affy MoGene 1.0ST (Jun12) RMA Females"
],
[
+ "428",
"INIA_Pituitary_RMA_M_0612",
"INIA Pituitary Affy MoGene 1.0ST (Jun12) RMA Males"
],
[
+ "335",
"INIA_PG_RMA_Ex_0612",
"INIA Pituitary Affy MoGene 1.0ST (Jun12) RMA Exon Level"
]
],
"Popliteal Lymph Node mRNA": [
[
+ "390",
"STJ_PLN_0912",
"St Jude BXD Popliteal Lymph Node Affy HT MG-430 PM (Sep12) RMA **"
]
],
"Prefrontal Cortex mRNA": [
[
+ "135",
"VCUSal_1206_R",
"VCU BXD PFC Sal M430 2.0 (Dec06) RMA"
],
[
+ "136",
"VCUEtOH_1206_R",
"VCU BXD PFC EtOH M430 2.0 (Dec06) RMA"
],
[
+ "137",
"VCUSal_1006_R",
"VCU BXD PFC Et vs Sal M430 2.0 (Dec06) Sscore"
],
[
+ "299",
"VCU_PF_AvE_0111_Ss",
"VCU BXD PFC EtOH vs CIE Air M430 2.0 (Jan11) Sscore **"
],
[
+ "300",
"VCU_PF_Et_0111_R",
"VCU BXD PFC CIE EtOH M430 2.0 (Jan11) RMA **"
],
[
+ "301",
"VCU_PF_Air_0111_R",
"VCU BXD PFC CIE Air M430 2.0 (Jan11) RMA **"
]
],
"Retina mRNA": [
[
+ "302",
"G2NEI_ILM_Retina_BXD_RI0410",
"Normal HEI Retina (April 2010) RankInv"
],
[
+ "267",
"Illum_Retina_BXD_RankInv0410",
"Full HEI Retina (April 2010) RankInv"
],
[
+ "385",
"ONCRetILM6_0412",
"ONC HEI Retina (April 2012) RankInv"
],
[
- "DoDTATRCRetExMoGene2_1313",
- "DoD TATRC Retina Affy MoGene 2.0 ST (Dec13) RMA Exon Level"
- ],
- [
+ "471",
"DoDTATRCRetMoGene2_1313",
"DoD TATRC Retina Affy MoGene 2.0 ST (Dec13) RMA"
],
[
+ "472",
+ "DoDTATRCRetExMoGene2_1313",
+ "DoD TATRC Retina Affy MoGene 2.0 ST (Dec13) RMA Exon Level"
+ ],
+ [
+ "434",
"ONCRetMoGene2_0413",
"DoD TATRC Retina Affy MoGene 2.0 ST (Oct13) RMA **"
],
[
+ "435",
"ONCRetExMoGene2_0413",
"DoD TATRC Retina Affy MoGene 2.0 ST (Oct13) RMA Exon Level **"
],
[
+ "479",
"DoDTATRCRetBLMoGene2_1213",
"DoD TATRC Retina Blast Affy MoGene 2.0 ST (Dec13) RMA **"
],
[
+ "480",
"DoDTATRCRetBLExMoGene2_1213",
"DoD TATRC Retina Blast Affy MoGene 2.0 ST (Dec13) RMA Exon Level **"
],
[
+ "386",
"B6D2ONCILM_0412",
"B6D2 ONC Retina (April 2012) RankInv **"
],
[
- "G2HEIONCRetILM6_0911",
- "G2 HEI ONC Retina Illumina V6.2 (Sep11) RankInv **"
- ],
- [
+ "371",
"HEIONCvsCRetILM6_0911",
"HEI ONC vs Control Retina Illumina V6.2 (Sep11) RankInv **"
+ ],
+ [
+ "372",
+ "G2HEIONCRetILM6_0911",
+ "G2 HEI ONC Retina Illumina V6.2 (Sep11) RankInv **"
]
],
"Spleen mRNA": [
[
+ "283",
"UTHSC_SPL_RMA_1210",
"UTHSC Affy MoGene 1.0 ST Spleen (Dec10) RMA"
],
[
+ "286",
"UTHSC_SPL_RMA_1210M",
"UTHSC Affy MoGene 1.0 ST Spleen (Dec10) RMA Males"
],
[
+ "287",
"UTHSC_SPL_RMA_1210F",
"UTHSC Affy MoGene 1.0 ST Spleen (Dec10) RMA Females"
],
[
+ "429",
"UTHSC_SPL_RMAEx_1210",
"UTHSC Affy MoGene 1.0 ST Spleen (Dec10) RMA Exon Level"
],
[
+ "271",
"UTHSC_SPL_RMA_1010",
"UTHSC Affy MoGene 1.0 ST Spleen (Oct10) RMA"
],
[
+ "260",
"UTK_BXDSpl_VST_0110",
"UTK Spleen ILM6.1 (Jan10) VST"
],
[
+ "227",
"IoP_SPL_RMA_0509",
"IoP Affy MOE 430v2 Spleen (May09) RMA"
],
[
+ "216",
"Illum_BXD_Spl_1108",
"UWA Illumina Spleen (Nov08) RSN **"
]
],
"Striatum mRNA": [
[
+ "399",
"Striatum_Exon_1212",
"HQF Striatum Affy Mouse Exon 1.0ST Gene Level (Dec09) RMA"
],
[
+ "163",
"Striatum_Exon_0209",
"HQF Striatum Affy Mouse Exon 1.0ST Exon Level (Dec09) RMA"
],
[
+ "285",
"UTHSC_Striatum_RankInv_1210",
"HQF BXD Striatum ILM6.1 (Dec10v2) RankInv"
],
[
+ "298",
"UTHSC_Str_RankInv_1210",
"HQF BXD Striatum ILM6.1 (Dec10) RankInv"
],
[
+ "152",
"UTHSC_1107_RankInv",
"HQF BXD Striatum ILM6.1 (Nov07) RankInv"
],
[
+ "74",
"SA_M2_0405_MC",
"HBP Rosen Striatum M430V2 (Apr05) MAS5 Clean"
],
[
+ "69",
"SA_M2_0405_RC",
"HBP Rosen Striatum M430V2 (Apr05) RMA Clean"
],
[
+ "68",
"SA_M2_0405_PC",
"HBP Rosen Striatum M430V2 (Apr05) PDNN Clean"
],
[
+ "67",
"SA_M2_0405_SS",
"HBP Rosen Striatum M430V2 (Apr05) SScore"
],
[
+ "66",
"SA_M2_0405_RR",
"HBP Rosen Striatum M430V2 (Apr05) RMA Orig"
],
[
+ "376",
"DevStriatum_ILM6.2P3RInv_1111",
"BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov11) RankInv **"
],
[
+ "377",
"DevStriatum_ILM6.2P14RInv_1111",
"BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov11) RankInv **"
],
[
- "DevStriatum_ILM6.2P3RInv_1110",
- "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **"
- ],
- [
+ "277",
"DevStriatum_ILM6.2P14RInv_1110",
"BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov10) RankInv **"
+ ],
+ [
+ "276",
+ "DevStriatum_ILM6.2P3RInv_1110",
+ "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **"
]
],
"T Cell (helper) mRNA": [
[
+ "319",
"RTHC_0211_R",
"HZI Thelp M430v2 (Feb11) RMA"
]
],
"T Cell (regulatory) mRNA": [
[
+ "122",
"RTC_1106_R",
"HZI Treg M430v2 (Feb11) RMA"
]
],
"Thymus mRNA": [
[
+ "217",
"Illum_BXD_Thy_1108",
"UWA Illumina Thymus (Nov08) RSN **"
]
],
"Ventral Tegmental Area mRNA": [
[
+ "229",
+ "VCUEtOH_0609_R",
+ "VCU BXD VTA EtOH M430 2.0 (Jun09) RMA **"
+ ],
+ [
+ "228",
"VCUSal_0609_R",
"VCU BXD VTA Sal M430 2.0 (Jun09) RMA **"
],
[
+ "230",
"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 **"
]
]
},
"BXH": {
"Bone Femur mRNA": [
[
+ "412",
"UCLA_BXH_Femur_0113_RSN",
"UCLA GSE27483 BXH Bone Femur ILM Mouse WG-6 v1, v1.1 (Jan13) RSN"
]
],
"Cartilage mRNA": [
[
+ "209",
"UCLA_BXHBXD_CARTILAGE_V2",
"UCLA BXH and BXD Cartilage v2"
],
[
+ "205",
"UCLA_BXHBXD_CARTILAGE",
"UCLA BXH and BXD Cartilage"
],
[
+ "179",
"UCLA_BXH_CARTILAGE",
"UCLA BXH Cartilage"
]
@@ -2224,6 +2646,7 @@
],
"Liver mRNA": [
[
+ "353",
"GSE16780BXH_UCLA_ML0911",
"GSE16780 UCLA Mouse BXH Liver Affy HT M430A (Sep11) RMA"
]
@@ -2252,28 +2675,34 @@
"CTB6F2": {
"Adipose mRNA": [
[
+ "170",
"UCLA_CTB6B6CTF2_ADIPOSE_2005",
"UCLA CTB6/B6CTF2 Adipose (2005) mlratio"
],
[
+ "189",
"UCLA_CTB6B6CTF2_ADIPOSE_FEMALE",
"UCLA CTB6B6CTF2 Adipose Female mlratio **"
],
[
+ "188",
"UCLA_CTB6B6CTF2_ADIPOSE_MALE",
"UCLA CTB6B6CTF2 Adipose Male mlratio **"
]
],
"Brain mRNA": [
[
+ "171",
"UCLA_CTB6B6CTF2_BRAIN_2005",
"UCLA CTB6/B6CTF2 Brain (2005) mlratio"
],
[
+ "190",
"UCLA_CTB6B6CTF2_BRAIN_MALE",
"UCLA CTB6/B6CTF2 Brain Males (2005) mlratio"
],
[
+ "191",
"UCLA_CTB6B6CTF2_BRAIN_FEMALE",
"UCLA CTB6/B6CTF2 Brain Females (2005) mlratio"
]
@@ -2286,28 +2715,34 @@
],
"Liver mRNA": [
[
+ "172",
"UCLA_CTB6B6CTF2_LIVER_2005",
"UCLA CTB6/B6CTF2 Liver (2005) mlratio"
],
[
+ "193",
"UCLA_CTB6B6CTF2_LIVER_FEMALE",
"UCLA CTB6B6CTF2 Liver Female mlratio **"
],
[
+ "192",
"UCLA_CTB6B6CTF2_LIVER_MALE",
"UCLA CTB6B6CTF2 Liver Male mlratio **"
]
],
"Muscle mRNA": [
[
+ "173",
"UCLA_CTB6B6CTF2_MUSCLE_2005",
"UCLA CTB6/B6CTF2 Muscle (2005) mlratio"
],
[
+ "195",
"UCLA_CTB6B6CTF2_MUSCLE_FEMALE",
"UCLA CTB6B6CTF2 Muscle Female mlratio **"
],
[
+ "194",
"UCLA_CTB6B6CTF2_MUSCLE_MALE",
"UCLA CTB6B6CTF2 Muscle Male mlratio **"
]
@@ -2328,12 +2763,14 @@
],
"Hippocampus mRNA": [
[
- "HC_M2CB_1205_P",
- "Hippocampus Consortium M430v2 CXB (Dec05) PDNN"
- ],
- [
+ "100",
"HC_M2CB_1205_R",
"Hippocampus Consortium M430v2 CXB (Dec05) RMA"
+ ],
+ [
+ "99",
+ "HC_M2CB_1205_P",
+ "Hippocampus Consortium M430v2 CXB (Dec05) PDNN"
]
],
"Phenotypes": [
@@ -2344,6 +2781,7 @@
],
"Spleen mRNA": [
[
+ "153",
"STSPL_1107_R",
"Stuart Spleen M430v2 (Nov07) RMA"
]
@@ -2352,18 +2790,21 @@
"HS": {
"Hippocampus mRNA": [
[
+ "268",
"OXUKHS_ILMHipp_RI0510",
"OX UK HS ILM6v1.1 Hippocampus (May 2010) RankInv"
]
],
"Liver mRNA": [
[
+ "269",
"OXUKHS_ILMLiver_RI0510",
"OX UK HS ILM6v1.1 Liver (May 2010) RankInv"
]
],
"Lung mRNA": [
[
+ "270",
"OXUKHS_ILMLung_RI0510",
"OX UK HS ILM6v1.1 Lung (May 2010) RankInv"
]
@@ -2378,6 +2819,7 @@
"HS-CC": {
"Striatum mRNA": [
[
+ "304",
"OHSU_HS-CC_ILMStr_0211",
"OHSU HS-CC Striatum ILM6v1 (Feb11) RankInv"
]
@@ -2392,52 +2834,64 @@
],
"Hippocampus mRNA": [
[
+ "143",
"Illum_LXS_Hipp_loess0807",
"Hippocampus Illumina (Aug07) LOESS"
],
[
+ "142",
"Illum_LXS_Hipp_loess_nb0807",
"Hippocampus Illumina (Aug07) LOESS_NB"
],
[
+ "141",
"Illum_LXS_Hipp_quant0807",
"Hippocampus Illumina (Aug07) QUANT"
],
[
+ "140",
"Illum_LXS_Hipp_quant_nb0807",
"Hippocampus Illumina (Aug07) QUANT_NB"
],
[
+ "139",
"Illum_LXS_Hipp_rsn0807",
"Hippocampus Illumina (Aug07) RSN"
],
[
+ "138",
"Illum_LXS_Hipp_rsn_nb0807",
"Hippocampus Illumina (Aug07) RSN_NB"
],
[
+ "133",
"Hipp_Illumina_RankInv_0507",
"Hippocampus Illumina (May07) RankInv"
],
[
+ "212",
+ "Illum_LXS_Hipp_RSE_1008",
+ "Hippocampus Illumina RSE (Oct08) RankInv beta"
+ ],
+ [
+ "214",
"Illum_LXS_Hipp_NOE_1008",
"Hippocampus Illumina NOE (Oct08) RankInv beta"
],
[
+ "211",
"Illum_LXS_Hipp_RSS_1008",
"Hippocampus Illumina RSS (Oct08) RankInv beta"
],
[
+ "213",
"Illum_LXS_Hipp_NOS_1008",
"Hippocampus Illumina NOS (Oct08) RankInv beta"
],
[
+ "219",
"Illum_LXS_Hipp_NON_1008",
"Hippocampus Illumina NON (Oct08) RankInv beta"
- ],
- [
- "Illum_LXS_Hipp_RSE_1008",
- "Hippocampus Illumina RSE (Oct08) RankInv beta"
]
],
"Phenotypes": [
@@ -2448,16 +2902,19 @@
],
"Prefrontal Cortex mRNA": [
[
+ "131",
+ "VCUEtOH_0806_R",
+ "VCU LXS PFC EtOH M430A 2.0 (Aug06) RMA **"
+ ],
+ [
+ "130",
"VCUSal_0806_R",
"VCU LXS PFC Sal M430A 2.0 (Aug06) RMA"
],
[
+ "132",
"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 **"
]
]
},
@@ -2478,12 +2935,14 @@
"MDP": {
"Bone Femur mRNA": [
[
+ "413",
"UCLA_MDP_Femur_0113_RSN",
"UCLA GSE27483 MDP Bone Femur ILM Mouse WG-6 v1, v1.1 (Jan13) RSN"
]
],
"Dorsal Root Ganglia mRNA": [
[
+ "402",
"TSRI-DRG-AffyMOE430_0113-MDP",
"TSRI DRG Affy Mouse Genome 430 2.0 (Jan13) RMA MDP"
]
@@ -2496,32 +2955,39 @@
],
"Hippocampus mRNA": [
[
- "HC_M2_0606_MDP",
- "Hippocampus Consortium M430v2 (Jun06) RMA MDP"
- ],
- [
+ "273",
"UMUTAffyExon_0209_RMA_MDP",
"UMUTAffy Hippocampus Exon (Feb09) RMA MDP"
+ ],
+ [
+ "272",
+ "HC_M2_0606_MDP",
+ "Hippocampus Consortium M430v2 (Jun06) RMA MDP"
]
],
"Liver mRNA": [
[
+ "370",
"GSE16780MDP_UCLA_ML0911",
"GSE16780 UCLA Mouse MDP Liver Affy HT M430A (Sep11) RMA"
],
[
+ "357",
"JAX_CSB_L_0711",
"JAX Liver Affy M430 2.0 (Jul11) MDP"
],
[
+ "358",
"JAX_CSB_L_HF_0711",
"JAX Liver HF Affy M430 2.0 (Jul11) MDP"
],
[
+ "359",
"JAX_CSB_L_6C_0711",
"JAX Liver 6C Affy M430 2.0 (Jul11) MDP"
],
[
+ "403",
"JAX_liver_agil_MDP-0113",
"Harrill-Rusyn MDP Liver Acetaminophen Tox Study (G4121A, 2009)"
]
@@ -2536,6 +3002,7 @@
"NZBXFVB-N2": {
"Mammary Tumors mRNA": [
[
+ "225",
"NCI_Mam_Tum_RMA_0409",
"NCI Mammary M430v2 (Apr09) RMA"
]
@@ -2558,10 +3025,12 @@
"Scripps-2013": {
"Anterior Cingulate Cortex mRNA": [
[
+ "450",
"ScrBXDACC4G0513",
"Scripps BXD ACC 4 Groups Affy Mouse Gene 1.0 ST (May13) RMA Gene Level **"
],
[
+ "451",
"ScrBXDACC4GEx0513",
"Scripps BXD ACC 4 Groups Affy Mouse Gene 1.0 ST (May13) RMA Exon Level **"
]
@@ -2580,6 +3049,7 @@
"HXBBXH": {
"Adrenal Gland mRNA": [
[
+ "220",
"HXB_Adrenal_1208",
"MDC/CAS/UCL Adrenal 230A (Dec08) RMA"
]
@@ -2592,42 +3062,50 @@
],
"Heart mRNA": [
[
+ "221",
"HXB_Heart_1208",
"MDC/CAS/UCL Heart 230_V2 (Dec08) RMA"
]
],
"Hippocampus mRNA": [
[
+ "231",
"UT_HippRatEx_RMA_0709",
"UT Hippocampus Affy RaEx 1.0 Exon (Jul09) RMA"
]
],
"Kidney mRNA": [
[
+ "70",
"KI_2A_0405_M",
"MDC/CAS/ICL Kidney 230A (Apr05) MAS5"
],
[
+ "65",
"KI_2A_0405_Rz",
"MDC/CAS/ICL Kidney 230A (Apr05) RMA 2z+8"
],
[
+ "64",
"KI_2A_0405_R",
"MDC/CAS/ICL Kidney 230A (Apr05) RMA"
]
],
"Liver mRNA": [
[
+ "222",
"HXB_Liver_1208",
"MDC/CAS/UCL Liver 230v2 (Dec08) RMA"
]
],
"Peritoneal Fat mRNA": [
[
+ "79",
"FT_2A_0805_M",
"MDC/CAS/ICL Peritoneal Fat 230A (Aug05) MAS5"
],
[
+ "75",
"FT_2A_0605_Rz",
"MDC/CAS/ICL Peritoneal Fat 230A (Jun05) RMA 2z+8"
]
@@ -2642,6 +3120,7 @@
"SRxSHRSPF2": {
"Eye mRNA": [
[
+ "226",
"UIOWA_Eye_RMA_0906",
"UIOWA Eye mRNA RAE230v2 (Sep06) RMA"
]
diff --git a/wqflask/wqflask/static/new/javascript/dataset_select_menu.js b/wqflask/wqflask/static/new/javascript/dataset_select_menu.js
index f91504be..1fe4cf75 100644
--- a/wqflask/wqflask/static/new/javascript/dataset_select_menu.js
+++ b/wqflask/wqflask/static/new/javascript/dataset_select_menu.js
@@ -28,6 +28,7 @@ $(function() {
window.populate_group = populate_group;
populate_type = function() {
var group, species, type_list;
+ console.log("in populate type");
species = $('#species').val();
group = $('#group').val();
type_list = this.jdata.types[species][group];
@@ -37,6 +38,7 @@ $(function() {
window.populate_type = populate_type;
populate_dataset = function() {
var dataset_list, group, species, type;
+ console.log("in populate dataset");
species = $('#species').val();
group = $('#group').val();
type = $('#type').val();
@@ -53,7 +55,11 @@ $(function() {
_results = [];
for (_i = 0, _len = items.length; _i < _len; _i++) {
item = items[_i];
- _results.push(dropdown.append($("<option />").val(item[0]).text(item[1])));
+ if (item.length > 2){
+ _results.push(dropdown.append($("<option data-id=\""+item[0]+"\" />").val(item[1]).text(item[2])));
+ } else {
+ _results.push(dropdown.append($("<option />").val(item[0]).text(item[1])));
+ }
}
return _results;
};
@@ -87,8 +93,8 @@ $(function() {
$('#group_info').click(group_info);
dataset_info = function() {
var dataset, url;
- dataset = $('#dataset').val();
- url = "/webqtl/main.py?FormID=sharinginfo&InfoPageName=" + dataset;
+ accession_id = $('#dataset option:selected').data("id");
+ url = "http://genenetwork.org/webqtl/main.py?FormID=sharinginfo&GN_AccessionId=" + accession_id;
return open_window(url, "Dataset Info");
};
$('#dataset_info').click(dataset_info);
diff --git a/wqflask/wqflask/templates/index_page.html b/wqflask/wqflask/templates/index_page.html
index 4803b17c..5d658bc7 100755
--- a/wqflask/wqflask/templates/index_page.html
+++ b/wqflask/wqflask/templates/index_page.html
@@ -61,10 +61,13 @@
<div class="form-group">
<label for="dataset" class="col-xs-1 control-label" style="width: 65px !important;">Dataset:</label>
<div class="col-xs-10 controls input-append">
- <div class="col-xs-8">
- <select name="dataset" id="dataset" class="form-control span5" style="width: 450px !important;"></select>
+ <div class="col-xs-10">
+ <select name="dataset" id="dataset" class="form-control span5" style="width: 340px !important;"></select>
<i class="icon-question-sign"></i>
</div>
+ <div class="col-xs-2">
+ <button type="button" id="dataset_info" class="btn btn-primary form-control" style="width: 75px !important;">Info</button>
+ </div>
</div>
</div>
diff --git a/wqflask/wqflask/templates/search_result_page.html b/wqflask/wqflask/templates/search_result_page.html
index 7b7f0037..02365b1d 100755
--- a/wqflask/wqflask/templates/search_result_page.html
+++ b/wqflask/wqflask/templates/search_result_page.html
@@ -16,7 +16,7 @@
<input type="hidden" name="uc_id" id="uc_id" value="{{ uc_id }}">
<!-- Need to customize text more for other types of searches -->
- <p>We searched <a href="/static/dbdoc/{{dataset.fullname}}">{{ dataset.fullname }}</a>
+ <p>We searched <a href="http://genenetwork.org/webqtl/main.py?FormID=sharinginfo&GN_AccessionId={{dataset.id}}">{{ dataset.fullname }}</a>
to find all records
{% for word in search_terms %}
{% if word.key|lower == "rif" %}
diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py
index 4446b431..c17d6274 100755
--- a/wqflask/wqflask/views.py
+++ b/wqflask/wqflask/views.py
@@ -385,10 +385,10 @@ def marker_regression_page():
#causeerror
- #print("TESTING GN1!!!")
- #gn1_template_vars = marker_regression_gn1.MarkerRegression(result).__dict__
- #print("gn1_template_vars:", gn1_template_vars)
- #causeerror
+ print("TESTING GN1!!!")
+ gn1_template_vars = marker_regression_gn1.MarkerRegression(result).__dict__
+ print("gn1_template_vars:", gn1_template_vars)
+ causeerror
#qtl_length = len(result['js_data']['qtl_results'])