From b2feda451ccfbeaed02dce9088d6dd228cf15861 Mon Sep 17 00:00:00 2001 From: Bonface Date: Tue, 13 Feb 2024 23:52:26 -0600 Subject: Update dataset RTF Files. --- .../Gse15222_f_a_ri_0409/acknowledgment.rtf | 1 + general/datasets/Gse15222_f_a_ri_0409/cases.rtf | 3290 ++++++++++++++++++++ .../datasets/Gse15222_f_a_ri_0409/contributors.rtf | 1 + .../Gse15222_f_a_ri_0409/experiment-design.rtf | 5 + .../Gse15222_f_a_ri_0409/experiment-type.rtf | 1 + general/datasets/Gse15222_f_a_ri_0409/notes.rtf | 6 + general/datasets/Gse15222_f_a_ri_0409/platform.rtf | 5 + general/datasets/Gse15222_f_a_ri_0409/summary.rtf | 9 + 8 files changed, 3318 insertions(+) create mode 100644 general/datasets/Gse15222_f_a_ri_0409/acknowledgment.rtf create mode 100644 general/datasets/Gse15222_f_a_ri_0409/cases.rtf create mode 100644 general/datasets/Gse15222_f_a_ri_0409/contributors.rtf create mode 100644 general/datasets/Gse15222_f_a_ri_0409/experiment-design.rtf create mode 100644 general/datasets/Gse15222_f_a_ri_0409/experiment-type.rtf create mode 100644 general/datasets/Gse15222_f_a_ri_0409/notes.rtf create mode 100644 general/datasets/Gse15222_f_a_ri_0409/platform.rtf create mode 100644 general/datasets/Gse15222_f_a_ri_0409/summary.rtf (limited to 'general/datasets/Gse15222_f_a_ri_0409') diff --git a/general/datasets/Gse15222_f_a_ri_0409/acknowledgment.rtf b/general/datasets/Gse15222_f_a_ri_0409/acknowledgment.rtf new file mode 100644 index 0000000..c203ed9 --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/acknowledgment.rtf @@ -0,0 +1 @@ +

http://labs.med.miami.edu/myers

diff --git a/general/datasets/Gse15222_f_a_ri_0409/cases.rtf b/general/datasets/Gse15222_f_a_ri_0409/cases.rtf new file mode 100644 index 0000000..6933d14 --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/cases.rtf @@ -0,0 +1,3290 @@ +

 

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+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
IndexGEO SeriesOrgan RegionTissueCase IDAgeSex
1GSM225652Temporal CortexNormalC225652M85N85M
2GSM225662Temporal CortexNormalC225662M85N85M
3GSM225664Temporal CortexNormalC225664F79N79F
4GSM225665Temporal CortexNormalC225665F85N85F
5GSM225666Temporal CortexNormalC225666F73N73F
6GSM225667Temporal CortexNormalC225667M81N81M
7GSM225668Temporal CortexNormalC225668M79N79M
8GSM225669Temporal CortexNormalC225669M77N77M
9GSM225670Temporal CortexNormalC225670M69N69M
10GSM225671Temporal CortexNormalC225671M86N86M
11GSM225672Temporal CortexNormalC225672F83N83F
12GSM225673Temporal CortexNormalC225673M78N78M
13GSM225674Temporal CortexNormalC225674M94N94M
14GSM225675Temporal CortexNormalC225675F81N81F
15GSM225676Temporal CortexNormalC225676M76N76M
16GSM225677Temporal CortexNormalC225677M83N83M
17GSM225678Temporal CortexNormalC225678M68N68M
18GSM225679Temporal CortexNormalC225679F82N82F
19GSM225680Temporal CortexNormalC225680F70N70F
20GSM225681Temporal CortexNormalC225681M86N86M
21GSM225682Temporal CortexNormalC225682M78N78M
22GSM225683Temporal CortexNormalC225683M82N82M
23GSM225684Temporal CortexNormalC225684F94N94F
24GSM225685Temporal CortexNormalC225685F87N87F
25GSM225686Temporal CortexNormalC225686M74N74M
26GSM225687Temporal CortexNormalC225687M85N85M
27GSM225688Temporal CortexNormalC225688M75N75M
28GSM225689Temporal CortexNormalC225689F86N86F
29GSM225690Temporal CortexNormalC225690M75N75M
30GSM225691Temporal CortexNormalC225691M81N81M
31GSM225692Temporal CortexNormalC225692F72N72F
32GSM225693Temporal CortexNormalC225693F81N81F
33GSM225695Temporal CortexNormalC225695M81N81M
34GSM225696Temporal CortexNormalC225696M81N81M
35GSM225697Temporal CortexNormalC225697M91N91M
36GSM225698Temporal CortexNormalC225698M84N84M
37GSM225699Temporal CortexNormalC225699M96N96M
38GSM225700Temporal CortexNormalC225700F97N97F
39GSM225701Temporal CortexNormalC225701M90N90M
40GSM225702Temporal CortexNormalC225702F67N67F
41GSM225703Temporal CortexNormalC225703F83N83F
42GSM225704Temporal CortexNormalC225704F82N82F
43GSM225705Temporal CortexNormalC225705F66N66F
44GSM225706Temporal CortexNormalC225706F72N72F
45GSM225707Temporal CortexNormalC225707F65N65F
46GSM225708Temporal CortexNormalC225708F75N75F
47GSM225709Temporal CortexNormalC225709F74N74F
48GSM225711Temporal CortexNormalC225711M68N68M
49GSM225713Temporal CortexNormalC225713F80N80F
50GSM225714Temporal CortexNormalC225714M80N80M
51GSM225715Temporal CortexNormalC225715M66N66M
52GSM225717Temporal CortexNormalC225717M88N88M
53GSM225718Temporal CortexNormalC225718F91N91F
54GSM225719Temporal CortexNormalC225719M73N73M
55GSM225720Temporal CortexNormalC225720M76N76M
56GSM225721Temporal CortexNormalC225721M75N75M
57GSM225722Temporal CortexNormalC225722F86N86F
58GSM225723Temporal CortexNormalC225723F72N72F
59GSM225724Temporal CortexNormalC225724M97N97M
60GSM225725Temporal CortexNormalC225725M86N86M
61GSM225726Temporal CortexNormalC225726M82N82M
62GSM225727Temporal CortexNormalC225727F95N95F
63GSM225728Temporal CortexNormalC225728F76N76F
64GSM225729Temporal CortexNormalC225729M76N76M
65GSM225730Temporal CortexNormalC225730M69N69M
66GSM225731Temporal CortexNormalC225731F80N80F
67GSM225732Temporal CortexNormalC225732F99N99F
68GSM225733Temporal CortexNormalC225733M68N68M
69GSM225734Temporal CortexNormalC225734M70N70M
70GSM225735Temporal CortexNormalC225735F87N87F
71GSM225736Temporal CortexNormalC225736F99N99F
72GSM225737Temporal CortexNormalC225737F88N88F
73GSM225739Temporal CortexNormalC225739M65N65M
74GSM225741Temporal CortexNormalC225741M82N82M
75GSM225742Temporal CortexNormalC225742F78N78F
76GSM225743Temporal CortexNormalC225743F85N85F
77GSM225744Temporal CortexNormalC225744F100N100F
78GSM225745Temporal CortexNormalC225745F87N87F
79GSM225746Temporal CortexNormalC225746F85N85F
80GSM225747Temporal CortexNormalC225747F97N97F
81GSM225748Temporal CortexNormalC225748M65N65M
82GSM225749Temporal CortexNormalC225749M65N65M
83GSM225751Temporal CortexNormalC225751F87N87F
84GSM225752Temporal CortexNormalC225752F85N85F
85GSM225753Temporal CortexNormalC225753M68N68M
86GSM225754Temporal CortexNormalC225754M71N71M
87GSM225755Temporal CortexNormalC225755F83N83F
88GSM225756Temporal CortexNormalC225756M76N76M
89GSM225757Temporal CortexNormalC225757M67N67M
90GSM225758Temporal CortexNormalC225758F100N100F
91GSM225759Temporal CortexNormalC225759M79N79M
92GSM225760Temporal CortexNormalC225760M74N74M
93GSM225761Temporal CortexNormalC225761F88N88F
94GSM225762Temporal CortexNormalC225762M70N70M
95GSM225763Temporal CortexNormalC225763F97N97F
96GSM225764Temporal CortexNormalC225764M69N69M
97GSM225915Temporal CortexNormalC225915F99N99F
98GSM225916Temporal CortexNormalC225916M81N81M
99GSM225917Temporal CortexNormalC225917F85N85F
100GSM225918Temporal CortexNormalC225918F82N82F
101GSM225919Temporal CortexNormalC225919M70N70M
102GSM225920Temporal CortexNormalC225920M73N73M
103GSM225921Temporal CortexNormalC225921M83N83M
104GSM225922Temporal CortexNormalC225922M74N74M
105GSM225923Temporal CortexNormalC225923M77N77M
106GSM225924Temporal CortexNormalC225924M81N81M
107GSM225925Temporal CortexNormalC225925M65N65M
108GSM225926Temporal CortexNormalC225926F73N73F
109GSM225927Temporal CortexNormalC225927F85N85F
110GSM225928Temporal CortexNormalC225928M69N69M
111GSM225929Temporal CortexNormalC225929M72N72M
112GSM225930Temporal CortexNormalC225930F76N76F
113GSM225931Temporal CortexNormalC225931M73N73M
114GSM225932Temporal CortexNormalC225932M66N66M
115GSM225933Temporal CortexNormalC225933F85N85F
116GSM225934Temporal CortexNormalC225934M87N87M
117GSM225935Temporal CortexNormalC225935F86N86F
118GSM225936Temporal CortexNormalC225936F73N73F
119GSM225937Temporal CortexNormalC225937M86N86M
120GSM225938Temporal CortexNormalC225938M72N72M
121GSM225939Temporal CortexNormalC225939F69N69F
122GSM225940Temporal CortexNormalC225940F88N88F
123GSM225941Temporal CortexNormalC225941M77N77M
124GSM225942Temporal CortexNormalC225942M96N96M
125GSM225943Temporal CortexNormalC225943F78N78F
126GSM225944Temporal CortexNormalC225944M77N77M
127GSM225945Temporal CortexNormalC225945F99N99F
128GSM225946Temporal CortexNormalC225946M78N78M
129GSM225947Temporal CortexNormalC225947F76N76F
130GSM225948Temporal CortexNormalC225948M78N78M
131GSM225949Temporal CortexNormalC225949F97N97F
132GSM225950Temporal CortexNormalC225950F86N86F
133GSM225951Temporal CortexNormalC225951M77N77M
134GSM225952Temporal CortexNormalC225952M87N87M
135GSM225953Temporal CortexNormalC225953F72N72F
136GSM225954Temporal CortexNormalC225954F91N91F
137GSM225955Temporal CortexNormalC225955F85N85F
138GSM225956Temporal CortexNormalC225956M88N88M
139GSM225957Temporal CortexNormalC225957F86N86F
140GSM225958Temporal CortexNormalC225958F93N93F
141GSM225959Temporal CortexNormalC225959M82N82M
142GSM225961Temporal CortexNormalC225961F72N72F
143GSM225962Temporal CortexNormalC225962F85N85F
144GSM225963Temporal CortexNormalC225963M70N70M
145GSM225964Temporal CortexNormalC225964F67N67F
146GSM225965Temporal CortexNormalC225965F74N74F
147GSM226034Temporal CortexNormalC226034M69N69M
148GSM226035Temporal CortexNormalC226035M85N85M
149GSM226037Temporal CortexNormalC226037M89N89M
150GSM226038Temporal CortexNormalC226038M86N86M
151GSM226039Temporal CortexNormalC226039M90N90M
152GSM226040Temporal CortexNormalC226040F94N94F
153GSM226041Temporal CortexNormalC226041F91N91F
154GSM226042Temporal CortexNormalC226042F91N91F
155GSM226044Temporal CortexNormalC226044F95N95F
156GSM226045Temporal CortexNormalC226045F95N95F
157GSM226046Temporal CortexNormalC226046F91N91F
158GSM226047Temporal CortexNormalC226047M80N80M
159GSM226048Temporal CortexNormalC226048M83N83M
160GSM226049Temporal CortexNormalC226049M67N67M
161GSM226050Temporal CortexNormalC226050M76N76M
162GSM226051Temporal CortexNormalC226051F86N86F
163GSM226052Temporal CortexNormalC226052F86N86F
164GSM226053Temporal CortexNormalC226053M83N83M
165GSM226055Temporal CortexNormalC226055M84N84M
166GSM226056Temporal CortexNormalC226056M80N80M
167GSM226082Temporal CortexNormalC226082M72N72M
168GSM226145Temporal CortexNormalC226145M67N67M
169GSM226146Temporal CortexNormalC226146F96N96F
170GSM226147Temporal CortexNormalC226147F75N75F
171GSM226148Temporal CortexNormalC226148F89N89F
172GSM226149Temporal CortexNormalC226149F86N86F
173GSM226150Temporal CortexNormalC226150M67N67M
174GSM226151Temporal CortexNormalC226151M77N77M
175GSM226154Temporal CortexNormalC226154M65N65M
176GSM226155Temporal CortexNormalC226155M69N69M
177GSM226156Temporal CortexNormalC226156M84N84M
178GSM226157Temporal CortexNormalC226157F85N85F
179GSM226158Temporal CortexNormalC226158M94N94M
180GSM226159Temporal CortexNormalC226159F89N89F
181GSM226160Temporal CortexNormalC226160M87N87M
182GSM226162Temporal CortexNormalC226162M90N90M
183GSM226163Temporal CortexNormalC226163F88N88F
184GSM226164Temporal CortexNormalC226164M94N94M
185GSM226165Temporal CortexNormalC226165F86N86F
186GSM226167Temporal CortexNormalC226167F93N93F
187GSM226168Temporal CortexNormalC226168M91N91M
188GSM388217Cortical TissueAlzheimer'sC388217F97A97F
189GSM388218Cortical TissueAlzheimer'sC388218F101A101F
190GSM388219Cortical TissueAlzheimer'sC388219M84A84M
191GSM388220Cortical TissueAlzheimer'sC388220F95A95F
192GSM388221Cortical TissueAlzheimer'sC388221F97A97F
193GSM388222Cortical TissueAlzheimer'sC388222F102A102F
194GSM388223Cortical TissueAlzheimer'sC388223M87A87M
195GSM388224Cortical TissueAlzheimer'sC388224F77A77F
196GSM388225Cortical TissueAlzheimer'sC388225M87A87M
197GSM388226Cortical TissueAlzheimer'sC388226M84A84M
198GSM388228Cortical TissueAlzheimer'sC388228F92A92F
199GSM388229Cortical TissueAlzheimer'sC388229M93A93M
200GSM388230Cortical TissueAlzheimer'sC388230F93A93F
201GSM388231Cortical TissueAlzheimer'sC388231F87A87F
202GSM388232Cortical TissueAlzheimer'sC388232F90A90F
203GSM388233Cortical TissueAlzheimer'sC388233M75A75M
204GSM388234Cortical TissueAlzheimer'sC388234M92A92M
205GSM388235Cortical TissueAlzheimer'sC388235M83A83M
206GSM388236Cortical TissueAlzheimer'sC388236M88A88M
207GSM388237Cortical TissueAlzheimer'sC388237M89A89M
208GSM388238Cortical TissueAlzheimer'sC388238F74A74F
209GSM388239Cortical TissueAlzheimer'sC388239F79A79F
210GSM388240Cortical TissueAlzheimer'sC388240M80A80M
211GSM388241Cortical TissueAlzheimer'sC388241F97A97F
212GSM388242Cortical TissueAlzheimer'sC388242M87A87M
213GSM388243Cortical TissueAlzheimer'sC388243F89A89F
214GSM388244Cortical TissueAlzheimer'sC388244F90A90F
215GSM388245Cortical TissueAlzheimer'sC388245M90A90M
216GSM388246Cortical TissueAlzheimer'sC388246M78A78M
217GSM388247Cortical TissueAlzheimer'sC388247F80A80F
218GSM388248Cortical TissueAlzheimer'sC388248F79A79F
219GSM388249Cortical TissueAlzheimer'sC388249F87A87F
220GSM388250Cortical TissueAlzheimer'sC388250F88A88F
221GSM388251Cortical TissueAlzheimer'sC388251M86A86M
222GSM388252Cortical TissueAlzheimer'sC388252F74A74F
223GSM388253Cortical TissueAlzheimer'sC388253F72A72F
224GSM388254Cortical TissueAlzheimer'sC388254M81A81M
225GSM388255Cortical TissueAlzheimer'sC388255F68A68F
226GSM388256Cortical TissueAlzheimer'sC388256F81A81F
227GSM388257Cortical TissueAlzheimer'sC388257F82A82F
228GSM388258Cortical TissueAlzheimer'sC388258M78A78M
229GSM388259Cortical TissueAlzheimer'sC388259M74A74M
230GSM388260Cortical TissueAlzheimer'sC388260M88A88M
231GSM388261Cortical TissueAlzheimer'sC388261F78A78F
232GSM388262Cortical TissueAlzheimer'sC388262M83A83M
233GSM388263Cortical TissueAlzheimer'sC388263M83A83M
234GSM388264Cortical TissueAlzheimer'sC388264M80A80M
235GSM388265Cortical TissueAlzheimer'sC388265M84A84M
236GSM388266Cortical TissueAlzheimer'sC388266F79A79F
237GSM388267Cortical TissueAlzheimer'sC388267F86A86F
238GSM388268Cortical TissueAlzheimer'sC388268M92A92M
239GSM388269Cortical TissueAlzheimer'sC388269F81A81F
240GSM388270Cortical TissueAlzheimer'sC388270F79A79F
241GSM388271Cortical TissueAlzheimer'sC388271M74A74M
242GSM388272Cortical TissueAlzheimer'sC388272F73A73F
243GSM388273Cortical TissueAlzheimer'sC388273M87A87M
244GSM388274Cortical TissueAlzheimer'sC388274F86A86F
245GSM388275Cortical TissueAlzheimer'sC388275F86A86F
246GSM388276Cortical TissueAlzheimer'sC388276F87A87F
247GSM388277Cortical TissueAlzheimer'sC388277F92A92F
248GSM388278Cortical TissueAlzheimer'sC388278F78A78F
249GSM388279Cortical TissueAlzheimer'sC388279F94A94F
250GSM388281Cortical TissueAlzheimer'sC388281F94A94F
251GSM388282Cortical TissueAlzheimer'sC388282M76A76M
252GSM388284Cortical TissueAlzheimer'sC388284M91A91M
253GSM388285Cortical TissueAlzheimer'sC388285M86A86M
254GSM388286Cortical TissueAlzheimer'sC388286M77A77M
255GSM388287Cortical TissueAlzheimer'sC388287M82A82M
256GSM388288Cortical TissueAlzheimer'sC388288M78A78M
257GSM388289Cortical TissueAlzheimer'sC388289M79A79M
258GSM388290Cortical TissueAlzheimer'sC388290F84A84F
259GSM388291Cortical TissueAlzheimer'sC388291F87A87F
260GSM388292Cortical TissueAlzheimer'sC388292F86A86F
261GSM388294Cortical TissueAlzheimer'sC388294M83A83M
262GSM388295Cortical TissueAlzheimer'sC388295M83A83M
263GSM388296Cortical TissueAlzheimer'sC388296M81A81M
264GSM388297Cortical TissueAlzheimer'sC388297F93A93F
265GSM388298Cortical TissueAlzheimer'sC388298M71A71M
266GSM388299Cortical TissueAlzheimer'sC388299M78A78M
267GSM388300Cortical TissueAlzheimer'sC388300F75A75F
268GSM388301Cortical TissueAlzheimer'sC388301F84A84F
269GSM388302Cortical TissueAlzheimer'sC388302M73A73M
270GSM388303Cortical TissueAlzheimer'sC388303F89A89F
271GSM388304Cortical TissueAlzheimer'sC388304FNAANAF
272GSM388305Cortical TissueAlzheimer'sC388305M69A69M
273GSM388306Cortical TissueAlzheimer'sC388306M83A83M
274GSM388307Cortical TissueAlzheimer'sC388307M71A71M
275GSM388308Cortical TissueAlzheimer'sC388308F86A86F
276GSM388309Cortical TissueAlzheimer'sC388309M82A82M
277GSM388310Cortical TissueAlzheimer'sC388310FNAANAF
278GSM388311Cortical TissueAlzheimer'sC388311M88A88M
279GSM388312Cortical TissueAlzheimer'sC388312M77A77M
280GSM388313Cortical TissueAlzheimer'sC388313M85A85M
281GSM388314Cortical TissueAlzheimer'sC388314F81A81F
282GSM388315Cortical TissueAlzheimer'sC388315F86A86F
283GSM388316Cortical TissueAlzheimer'sC388316M89A89M
284GSM388317Cortical TissueAlzheimer'sC388317F73A73F
285GSM388318Cortical TissueAlzheimer'sC388318F96A96F
286GSM388319Cortical TissueAlzheimer'sC388319M73A73M
287GSM388320Cortical TissueAlzheimer'sC388320M81A81M
288GSM388321Cortical TissueAlzheimer'sC388321F84A84F
289GSM388322Cortical TissueAlzheimer'sC388322F93A93F
290GSM388323Cortical TissueAlzheimer'sC388323F82A82F
291GSM388324Cortical TissueAlzheimer'sC388324M76A76M
292GSM388325Cortical TissueAlzheimer'sC388325M77A77M
293GSM388326Cortical TissueAlzheimer'sC388326F86A86F
294GSM388327Cortical TissueAlzheimer'sC388327F85A85F
295GSM388328Cortical TissueAlzheimer'sC388328M83A83M
296GSM388329Cortical TissueAlzheimer'sC388329M76A76M
297GSM388330Cortical TissueAlzheimer'sC388330M81A81M
298GSM388331Cortical TissueAlzheimer'sC388331M79A79M
299GSM388332Cortical TissueAlzheimer'sC388332M81A81M
300GSM388333Cortical TissueAlzheimer'sC388333F78A78F
301GSM388334Cortical TissueAlzheimer'sC388334M80A80M
302GSM388335Cortical TissueAlzheimer'sC388335M84A84M
303GSM388336Cortical TissueAlzheimer'sC388336F85A85F
304GSM388337Cortical TissueAlzheimer'sC388337M75A75M
305GSM388338Cortical TissueAlzheimer'sC388338F80A80F
306GSM388339Cortical TissueAlzheimer'sC388339F97A97F
307GSM388340Cortical TissueAlzheimer'sC388340F82A82F
308GSM388341Cortical TissueAlzheimer'sC388341M82A82M
309GSM388342Cortical TissueAlzheimer'sC388342M77A77M
310GSM388343Cortical TissueAlzheimer'sC388343M81A81M
311GSM388345Cortical TissueAlzheimer'sC388345F96A96F
312GSM388346Cortical TissueAlzheimer'sC388346F90A90F
313GSM388347Cortical TissueAlzheimer'sC388347M86A86M
314GSM388348Cortical TissueAlzheimer'sC388348M88A88M
315GSM388349Cortical TissueAlzheimer'sC388349F90A90F
316GSM388350Cortical TissueAlzheimer'sC388350F90A90F
317GSM388351Cortical TissueAlzheimer'sC388351F84A84F
318GSM388352Cortical TissueAlzheimer'sC388352M84A84M
319GSM388353Cortical TissueAlzheimer'sC388353F91A91F
320GSM388354Cortical TissueAlzheimer'sC388354F81A81F
321GSM388355Cortical TissueAlzheimer'sC388355F84A84F
322GSM388356Cortical TissueAlzheimer'sC388356M80A80M
323GSM388357Cortical TissueAlzheimer'sC388357M81A81M
324GSM388358Cortical TissueAlzheimer'sC388358F87A87F
325GSM388359Cortical TissueAlzheimer'sC388359M85A85M
326GSM388360Cortical TissueAlzheimer'sC388360F90A90F
327GSM388361Cortical TissueAlzheimer'sC388361M79A79M
328GSM388362Cortical TissueAlzheimer'sC388362F87A87F
329GSM388363Cortical TissueAlzheimer'sC388363M75A75M
330GSM388364Cortical TissueAlzheimer'sC388364F92A92F
331GSM388365Cortical TissueAlzheimer'sC388365F84A84F
332GSM388366Cortical TissueAlzheimer'sC388366M75A75M
333GSM388367Cortical TissueAlzheimer'sC388367F76A76F
334GSM388368Cortical TissueAlzheimer'sC388368F86A86F
335GSM388369Cortical TissueAlzheimer'sC388369M82A82M
336GSM388370Cortical TissueAlzheimer'sC388370M76A76M
337GSM388371Cortical TissueAlzheimer'sC388371F81A81F
338GSM388372Cortical TissueAlzheimer'sC388372F80A80F
339GSM388373Cortical TissueAlzheimer'sC388373M83A83M
340GSM388374Cortical TissueAlzheimer'sC388374F83A83F
341GSM388375Cortical TissueAlzheimer'sC388375F84A84F
342GSM388376Cortical TissueAlzheimer'sC388376M93A93M
343GSM388377Cortical TissueAlzheimer'sC388377F92A92F
344GSM388378Cortical TissueAlzheimer'sC388378M78A78M
345GSM388379Cortical TissueAlzheimer'sC388379M90A90M
346GSM388380Cortical TissueAlzheimer'sC388380M83A83M
347GSM388381Cortical TissueAlzheimer'sC388381M79A79M
348GSM388382Cortical TissueAlzheimer'sC388382M84A84M
349GSM388383Cortical TissueAlzheimer'sC388383F90A90F
350GSM388384Cortical TissueAlzheimer'sC388384F88A88F
351GSM388385Cortical TissueAlzheimer'sC388385M77A77M
352GSM388386Cortical TissueAlzheimer'sC388386F80A80F
353GSM388387Cortical TissueAlzheimer'sC388387M87A87M
354GSM388388Cortical TissueAlzheimer'sC388388M86A86M
355GSM388389Cortical TissueAlzheimer'sC388389M74A74M
356GSM388390Cortical TissueAlzheimer'sC388390F86A86F
357GSM388391Cortical TissueAlzheimer'sC388391F81A81F
358GSM388392Cortical TissueAlzheimer'sC388392F73A73F
359GSM388393Cortical TissueAlzheimer'sC388393M83A83M
360GSM388394Cortical TissueAlzheimer'sC388394M86A86M
361GSM388395Cortical TissueAlzheimer'sC388395F86A86F
362GSM388396Cortical TissueAlzheimer'sC388396M78A78M
363GSM388397Cortical TissueAlzheimer'sC388397M83A83M
+
diff --git a/general/datasets/Gse15222_f_a_ri_0409/contributors.rtf b/general/datasets/Gse15222_f_a_ri_0409/contributors.rtf new file mode 100644 index 0000000..72c2296 --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/contributors.rtf @@ -0,0 +1 @@ +

Webster J, Gibbs R, Myers A

diff --git a/general/datasets/Gse15222_f_a_ri_0409/experiment-design.rtf b/general/datasets/Gse15222_f_a_ri_0409/experiment-design.rtf new file mode 100644 index 0000000..07d1b52 --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/experiment-design.rtf @@ -0,0 +1,5 @@ +

Expression profiling by array

+ +

We recently surveyed the relationship between the human brain transcriptome and genome in a series of neuropathologically normal postmortem samples. We now have analyzed additional samples with a confirmed pathologic diagnosis of late onset Alzheimer's disease (LOAD, final n=187 controls, 176 cases). Nine percent of the cortical transcripts we analyzed had expression profiles correlated with their genotypes in the combined cohort and approximately 5% of transcripts had SNP-transcript relationships that could distinguish LOAD samples. Two of these transcripts have been previously implicated in LOAD candidate gene SNP-expression screens. This study shows how the relationship between common inherited genetic variants and brain transcript expression can be used in the study of human brain disorders. We suggest that studying the transcriptome as a quantitative endo-phenotype has greater power to find risk SNPs influencing expression than the use of discrete diagnostic categories such as presence or absence of disease. see DOI:10.1016/j.ajhg.2009.03.011 for further details and complete author list.

+ +

Expression quantitative trait loci study using human brain from 363 cortical samples. Affymetrix 500K chip for genotyping, Illumina Sentrix Human-ref 8 bead array chip for expression. Genotyping data will be available at dbGAP.

diff --git a/general/datasets/Gse15222_f_a_ri_0409/experiment-type.rtf b/general/datasets/Gse15222_f_a_ri_0409/experiment-type.rtf new file mode 100644 index 0000000..0546e04 --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/experiment-type.rtf @@ -0,0 +1 @@ +Expression profiling by array \ No newline at end of file diff --git a/general/datasets/Gse15222_f_a_ri_0409/notes.rtf b/general/datasets/Gse15222_f_a_ri_0409/notes.rtf new file mode 100644 index 0000000..e7bd85c --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/notes.rtf @@ -0,0 +1,6 @@ +

Access to the original data from Dr. Myers' laboratory
+or GEO GSE15222
+PMI = Post Mortem Interval
+Cannot find this record in the GEO website: WGACON-120
+
+This data is based on May 2004 (NCBI35/hg17).

diff --git a/general/datasets/Gse15222_f_a_ri_0409/platform.rtf b/general/datasets/Gse15222_f_a_ri_0409/platform.rtf new file mode 100644 index 0000000..5bcda8b --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/platform.rtf @@ -0,0 +1,5 @@ +

Illumina Human 50 mer probes. Total of 24357 probes according to Myers et al. A total of 24354 probes included in this GeneNetwork file.

+ +

From the Methods section of the paper:

+ +

Genotyping and Expression Profiling DNA was hybridized to the Affymetrix GeneChip Human Mapping 500K Array Set (502,627 SNPs) as previously described.11,12 Genotypes were extracted with the use of both SNiPer-HD13 and BRLMM (Affymetrix, Santa Clara, CA) algorithms. Genotypes that exhibited less than 98% concordance between calls were excluded. SNPs with call rates less than 90% were excluded from the analysis. HardyWeinberg equilibrium (HWE) was assessed with exact tests and the PLINK analysis toolset.14 SNPs with HWE exact-test p values less than 0.05, as well as SNPs with minor-allele frequencies less than 1%, were excluded. Allele calls had a mean of 97% and a range of 90%–99%. cRNA was hybridized to Illumina Human Refseq-8 Expression BeadChip (24,357 transcripts) via standard protocols. Expression profiles were extracted and rank invariant normalized15–17 with the use of the BeadStudio software available from Illumina, with the Illumina custom error model used. Rankinvariant-normalized expression data were log10 transformed, and missing data were encoded as missing, rather than as a zero level of expression.

diff --git a/general/datasets/Gse15222_f_a_ri_0409/summary.rtf b/general/datasets/Gse15222_f_a_ri_0409/summary.rtf new file mode 100644 index 0000000..e99fa9e --- /dev/null +++ b/general/datasets/Gse15222_f_a_ri_0409/summary.rtf @@ -0,0 +1,9 @@ +

Myers and colleagues generated massive neocortical transcriptome data sets for a set of unrelated elderly neurologically and neuropathologically normal humans and from confirmed late onset Alzheimer's disease patients (LOAD, n = 187 normal and 176 LOAD cases, see DOI:10.1016/j.ajhg.2009.03.011 for detail). They used an Illumina Sentrix Bead array (HumanRef-8) that measures expression of approximately 19,730 curated RefSeq sequences (Human Build 34).

+ +

Case identifiers: All case identifiers (IDs) in GeneNetwork begin with a capital C followed by a six digit GEO identifier, followed by the sex and age in years. Non-Alzheimer cases are labeled with the suffix letter N: C225652M85N. Alzheimer cases are labeled with the suffix letter A: C388217F97A.

+ +

Data were initially downloaded from the NCBI GEO archive under the experiment ID GSE15222. All data were generated using the Illumina HumanRef-8 expression BeadChip (GPL2700) v2 Rev0. This data set in GeneNetwork includes data for 24,354 probes. We have realigned the 50-mer sequences by BLAT to the latest version of the human genome (Feb 2009, hg19) and reannotated the array (August 2009). The annotation in GN will differ from that provided in GEO for this platform. We were unable to obtain 50-mer sequences for several thousand probes (e.g., HTT), and these probes have therefore not been realigned to the human genome.

+ +

The GEO data set was processed by Myers and colleagues using Illumina's Rank Invariant transform. We performed a series of QC and renormalization steps to the data to allow more facile comparison to other data sets in GeneNetwork. In brief, data is log2 transformed. We recentered each array to a mean expression of 8 units and a standard deviation of 2 units (2z + 8 transform). The values are therefore modified z scores and each unit represents roughly a two-fold difference in expression. Average expression across all 363 cases range from a low of 6 units (e.g., SYT15) to a high of 19 units for ARSK. APOE has an average expression of 15 units and APP has an average expression of 11.5 units.. The distribution is far from normal with a great excess of measurements of genes with low to moderate expression clustered between 6.5 and 8.5 units.

+ +

A small number of arrays (n = 6, GSM226040, GSM226041, GSM226042, GSM226044, GSM226045, GSM226046) had a different distribution from the great majority of other arrays. This was probably due to a batch processing effect. Members of this minority group belonged to both normal and LOAD cases. This putative batch effect has been eliminated in the GeneNetwork rendition of the Myers data. To eliminate the putative batch effect, we simply computed a mean offset for each probe in the "minority set" relative to the remaining "majority set" and added or subtracted this offset to force the mean of each probe in the minority set to conform to mean of the same probe in the majority set.

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