MARQ 0.0.1

Sign up to get free protection for your applications and to get access to all the features.
Files changed (635) hide show
  1. data/LICENSE +20 -0
  2. data/R/CustomDS.R +80 -0
  3. data/R/GEO.R +249 -0
  4. data/R/MA.R +359 -0
  5. data/README.rdoc +29 -0
  6. data/bin/marq_config +170 -0
  7. data/install_scripts/CustomDS/Rakefile +223 -0
  8. data/install_scripts/GEO/Rakefile +258 -0
  9. data/install_scripts/GEO/platforms/GPL100.yaml +7 -0
  10. data/install_scripts/GEO/platforms/GPL1002.yaml +7 -0
  11. data/install_scripts/GEO/platforms/GPL1007.yaml +7 -0
  12. data/install_scripts/GEO/platforms/GPL101.yaml +7 -0
  13. data/install_scripts/GEO/platforms/GPL1010.yaml +7 -0
  14. data/install_scripts/GEO/platforms/GPL1073.yaml +7 -0
  15. data/install_scripts/GEO/platforms/GPL1074.yaml +4 -0
  16. data/install_scripts/GEO/platforms/GPL1090.yaml +7 -0
  17. data/install_scripts/GEO/platforms/GPL1104.yaml +7 -0
  18. data/install_scripts/GEO/platforms/GPL118.yaml +7 -0
  19. data/install_scripts/GEO/platforms/GPL1205.yaml +4 -0
  20. data/install_scripts/GEO/platforms/GPL1211.yaml +7 -0
  21. data/install_scripts/GEO/platforms/GPL1213.yaml +7 -0
  22. data/install_scripts/GEO/platforms/GPL1219.yaml +4 -0
  23. data/install_scripts/GEO/platforms/GPL1223.yaml +7 -0
  24. data/install_scripts/GEO/platforms/GPL1226.yaml +7 -0
  25. data/install_scripts/GEO/platforms/GPL1229.yaml +7 -0
  26. data/install_scripts/GEO/platforms/GPL1230.yaml +7 -0
  27. data/install_scripts/GEO/platforms/GPL1231.yaml +7 -0
  28. data/install_scripts/GEO/platforms/GPL1232.yaml +7 -0
  29. data/install_scripts/GEO/platforms/GPL1260.yaml +4 -0
  30. data/install_scripts/GEO/platforms/GPL1261.yaml +4 -0
  31. data/install_scripts/GEO/platforms/GPL127.yaml +4 -0
  32. data/install_scripts/GEO/platforms/GPL128.yaml +7 -0
  33. data/install_scripts/GEO/platforms/GPL1290.yaml +7 -0
  34. data/install_scripts/GEO/platforms/GPL1292.yaml +7 -0
  35. data/install_scripts/GEO/platforms/GPL1293.yaml +7 -0
  36. data/install_scripts/GEO/platforms/GPL1294.yaml +7 -0
  37. data/install_scripts/GEO/platforms/GPL1295.yaml +7 -0
  38. data/install_scripts/GEO/platforms/GPL13.yaml +4 -0
  39. data/install_scripts/GEO/platforms/GPL1310.yaml +7 -0
  40. data/install_scripts/GEO/platforms/GPL1313.yaml +7 -0
  41. data/install_scripts/GEO/platforms/GPL1323.yaml +7 -0
  42. data/install_scripts/GEO/platforms/GPL1331.yaml +7 -0
  43. data/install_scripts/GEO/platforms/GPL1352.yaml +4 -0
  44. data/install_scripts/GEO/platforms/GPL1355.yaml +4 -0
  45. data/install_scripts/GEO/platforms/GPL1382.yaml +7 -0
  46. data/install_scripts/GEO/platforms/GPL1387.yaml +7 -0
  47. data/install_scripts/GEO/platforms/GPL1397.yaml +4 -0
  48. data/install_scripts/GEO/platforms/GPL14.yaml +7 -0
  49. data/install_scripts/GEO/platforms/GPL1412.yaml +7 -0
  50. data/install_scripts/GEO/platforms/GPL1415.yaml +7 -0
  51. data/install_scripts/GEO/platforms/GPL1420.yaml +7 -0
  52. data/install_scripts/GEO/platforms/GPL144.yaml +7 -0
  53. data/install_scripts/GEO/platforms/GPL1449.yaml +7 -0
  54. data/install_scripts/GEO/platforms/GPL1458.yaml +7 -0
  55. data/install_scripts/GEO/platforms/GPL1523.yaml +7 -0
  56. data/install_scripts/GEO/platforms/GPL1524.yaml +7 -0
  57. data/install_scripts/GEO/platforms/GPL1528.yaml +7 -0
  58. data/install_scripts/GEO/platforms/GPL153.yaml +7 -0
  59. data/install_scripts/GEO/platforms/GPL1530.yaml +7 -0
  60. data/install_scripts/GEO/platforms/GPL1535.yaml +4 -0
  61. data/install_scripts/GEO/platforms/GPL155.yaml +7 -0
  62. data/install_scripts/GEO/platforms/GPL163.yaml +7 -0
  63. data/install_scripts/GEO/platforms/GPL168.yaml +7 -0
  64. data/install_scripts/GEO/platforms/GPL169.yaml +7 -0
  65. data/install_scripts/GEO/platforms/GPL1704.yaml +4 -0
  66. data/install_scripts/GEO/platforms/GPL1708.yaml +7 -0
  67. data/install_scripts/GEO/platforms/GPL1739.yaml +7 -0
  68. data/install_scripts/GEO/platforms/GPL1740.yaml +4 -0
  69. data/install_scripts/GEO/platforms/GPL1749.yaml +7 -0
  70. data/install_scripts/GEO/platforms/GPL177.yaml +7 -0
  71. data/install_scripts/GEO/platforms/GPL1790.yaml +7 -0
  72. data/install_scripts/GEO/platforms/GPL1792.yaml +7 -0
  73. data/install_scripts/GEO/platforms/GPL181.yaml +7 -0
  74. data/install_scripts/GEO/platforms/GPL1818.yaml +7 -0
  75. data/install_scripts/GEO/platforms/GPL1820.yaml +4 -0
  76. data/install_scripts/GEO/platforms/GPL1823.yaml +7 -0
  77. data/install_scripts/GEO/platforms/GPL1826.yaml +7 -0
  78. data/install_scripts/GEO/platforms/GPL183.yaml +7 -0
  79. data/install_scripts/GEO/platforms/GPL1831.yaml +7 -0
  80. data/install_scripts/GEO/platforms/GPL1833.yaml +7 -0
  81. data/install_scripts/GEO/platforms/GPL1872.yaml +4 -0
  82. data/install_scripts/GEO/platforms/GPL1911.yaml +7 -0
  83. data/install_scripts/GEO/platforms/GPL1914.yaml +4 -0
  84. data/install_scripts/GEO/platforms/GPL1928.yaml +7 -0
  85. data/install_scripts/GEO/platforms/GPL1942.yaml +7 -0
  86. data/install_scripts/GEO/platforms/GPL1945.yaml +7 -0
  87. data/install_scripts/GEO/platforms/GPL1964.yaml +7 -0
  88. data/install_scripts/GEO/platforms/GPL198.yaml +4 -0
  89. data/install_scripts/GEO/platforms/GPL1981.yaml +4 -0
  90. data/install_scripts/GEO/platforms/GPL200.yaml +7 -0
  91. data/install_scripts/GEO/platforms/GPL2006.yaml +7 -0
  92. data/install_scripts/GEO/platforms/GPL201.yaml +4 -0
  93. data/install_scripts/GEO/platforms/GPL2011.yaml +7 -0
  94. data/install_scripts/GEO/platforms/GPL2026.yaml +7 -0
  95. data/install_scripts/GEO/platforms/GPL205.yaml +7 -0
  96. data/install_scripts/GEO/platforms/GPL207.yaml +7 -0
  97. data/install_scripts/GEO/platforms/GPL2136.yaml +7 -0
  98. data/install_scripts/GEO/platforms/GPL220.yaml +7 -0
  99. data/install_scripts/GEO/platforms/GPL226.yaml +7 -0
  100. data/install_scripts/GEO/platforms/GPL24.yaml +4 -0
  101. data/install_scripts/GEO/platforms/GPL246.yaml +4 -0
  102. data/install_scripts/GEO/platforms/GPL247.yaml +7 -0
  103. data/install_scripts/GEO/platforms/GPL2507.yaml +4 -0
  104. data/install_scripts/GEO/platforms/GPL2529.yaml +4 -0
  105. data/install_scripts/GEO/platforms/GPL2531.yaml +7 -0
  106. data/install_scripts/GEO/platforms/GPL254.yaml +7 -0
  107. data/install_scripts/GEO/platforms/GPL2569.yaml +7 -0
  108. data/install_scripts/GEO/platforms/GPL257.yaml +7 -0
  109. data/install_scripts/GEO/platforms/GPL2598.yaml +7 -0
  110. data/install_scripts/GEO/platforms/GPL260.yaml +7 -0
  111. data/install_scripts/GEO/platforms/GPL2614.yaml +4 -0
  112. data/install_scripts/GEO/platforms/GPL2622.yaml +7 -0
  113. data/install_scripts/GEO/platforms/GPL2623.yaml +7 -0
  114. data/install_scripts/GEO/platforms/GPL2660.yaml +7 -0
  115. data/install_scripts/GEO/platforms/GPL2670.yaml +7 -0
  116. data/install_scripts/GEO/platforms/GPL2677.yaml +7 -0
  117. data/install_scripts/GEO/platforms/GPL2700.yaml +4 -0
  118. data/install_scripts/GEO/platforms/GPL2721.yaml +7 -0
  119. data/install_scripts/GEO/platforms/GPL2727.yaml +7 -0
  120. data/install_scripts/GEO/platforms/GPL273.yaml +7 -0
  121. data/install_scripts/GEO/platforms/GPL2763.yaml +7 -0
  122. data/install_scripts/GEO/platforms/GPL2824.yaml +7 -0
  123. data/install_scripts/GEO/platforms/GPL284.yaml +7 -0
  124. data/install_scripts/GEO/platforms/GPL287.yaml +4 -0
  125. data/install_scripts/GEO/platforms/GPL2872.yaml +7 -0
  126. data/install_scripts/GEO/platforms/GPL288.yaml +4 -0
  127. data/install_scripts/GEO/platforms/GPL2883.yaml +7 -0
  128. data/install_scripts/GEO/platforms/GPL289.yaml +4 -0
  129. data/install_scripts/GEO/platforms/GPL2895.yaml +4 -0
  130. data/install_scripts/GEO/platforms/GPL2897.yaml +7 -0
  131. data/install_scripts/GEO/platforms/GPL2902.yaml +7 -0
  132. data/install_scripts/GEO/platforms/GPL2987.yaml +4 -0
  133. data/install_scripts/GEO/platforms/GPL2995.yaml +7 -0
  134. data/install_scripts/GEO/platforms/GPL3039.yaml +4 -0
  135. data/install_scripts/GEO/platforms/GPL3050.yaml +7 -0
  136. data/install_scripts/GEO/platforms/GPL3084.yaml +7 -0
  137. data/install_scripts/GEO/platforms/GPL3113.yaml +7 -0
  138. data/install_scripts/GEO/platforms/GPL317.yaml +7 -0
  139. data/install_scripts/GEO/platforms/GPL319.yaml +7 -0
  140. data/install_scripts/GEO/platforms/GPL32.yaml +4 -0
  141. data/install_scripts/GEO/platforms/GPL3222.yaml +7 -0
  142. data/install_scripts/GEO/platforms/GPL3295.yaml +7 -0
  143. data/install_scripts/GEO/platforms/GPL3305.yaml +4 -0
  144. data/install_scripts/GEO/platforms/GPL3306.yaml +7 -0
  145. data/install_scripts/GEO/platforms/GPL3307.yaml +7 -0
  146. data/install_scripts/GEO/platforms/GPL333.yaml +4 -0
  147. data/install_scripts/GEO/platforms/GPL3341.yaml +7 -0
  148. data/install_scripts/GEO/platforms/GPL3349.yaml +7 -0
  149. data/install_scripts/GEO/platforms/GPL339.yaml +4 -0
  150. data/install_scripts/GEO/platforms/GPL340.yaml +4 -0
  151. data/install_scripts/GEO/platforms/GPL3408.yaml +7 -0
  152. data/install_scripts/GEO/platforms/GPL341.yaml +4 -0
  153. data/install_scripts/GEO/platforms/GPL3415.yaml +4 -0
  154. data/install_scripts/GEO/platforms/GPL3423.yaml +7 -0
  155. data/install_scripts/GEO/platforms/GPL3440.yaml +7 -0
  156. data/install_scripts/GEO/platforms/GPL3457.yaml +4 -0
  157. data/install_scripts/GEO/platforms/GPL3504.yaml +4 -0
  158. data/install_scripts/GEO/platforms/GPL3506.yaml +4 -0
  159. data/install_scripts/GEO/platforms/GPL355.yaml +7 -0
  160. data/install_scripts/GEO/platforms/GPL3558.yaml +7 -0
  161. data/install_scripts/GEO/platforms/GPL3607.yaml +7 -0
  162. data/install_scripts/GEO/platforms/GPL368.yaml +4 -0
  163. data/install_scripts/GEO/platforms/GPL3695.yaml +7 -0
  164. data/install_scripts/GEO/platforms/GPL371.yaml +7 -0
  165. data/install_scripts/GEO/platforms/GPL3834.yaml +4 -0
  166. data/install_scripts/GEO/platforms/GPL4006.yaml +7 -0
  167. data/install_scripts/GEO/platforms/GPL4055.yaml +7 -0
  168. data/install_scripts/GEO/platforms/GPL409.yaml +7 -0
  169. data/install_scripts/GEO/platforms/GPL4191.yaml +7 -0
  170. data/install_scripts/GEO/platforms/GPL4226.yaml +7 -0
  171. data/install_scripts/GEO/platforms/GPL4371.yaml +7 -0
  172. data/install_scripts/GEO/platforms/GPL4567.yaml +4 -0
  173. data/install_scripts/GEO/platforms/GPL4685.yaml +4 -0
  174. data/install_scripts/GEO/platforms/GPL483.yaml +7 -0
  175. data/install_scripts/GEO/platforms/GPL49.yaml +7 -0
  176. data/install_scripts/GEO/platforms/GPL50.yaml +7 -0
  177. data/install_scripts/GEO/platforms/GPL500.yaml +7 -0
  178. data/install_scripts/GEO/platforms/GPL507.yaml +4 -0
  179. data/install_scripts/GEO/platforms/GPL51.yaml +7 -0
  180. data/install_scripts/GEO/platforms/GPL513.yaml +7 -0
  181. data/install_scripts/GEO/platforms/GPL519.yaml +7 -0
  182. data/install_scripts/GEO/platforms/GPL52.yaml +7 -0
  183. data/install_scripts/GEO/platforms/GPL529.yaml +7 -0
  184. data/install_scripts/GEO/platforms/GPL53.yaml +7 -0
  185. data/install_scripts/GEO/platforms/GPL5356.yaml +7 -0
  186. data/install_scripts/GEO/platforms/GPL538.yaml +7 -0
  187. data/install_scripts/GEO/platforms/GPL54.yaml +7 -0
  188. data/install_scripts/GEO/platforms/GPL543.yaml +7 -0
  189. data/install_scripts/GEO/platforms/GPL544.yaml +7 -0
  190. data/install_scripts/GEO/platforms/GPL545.yaml +7 -0
  191. data/install_scripts/GEO/platforms/GPL546.yaml +7 -0
  192. data/install_scripts/GEO/platforms/GPL547.yaml +7 -0
  193. data/install_scripts/GEO/platforms/GPL549.yaml +7 -0
  194. data/install_scripts/GEO/platforms/GPL550.yaml +4 -0
  195. data/install_scripts/GEO/platforms/GPL56.yaml +7 -0
  196. data/install_scripts/GEO/platforms/GPL560.yaml +4 -0
  197. data/install_scripts/GEO/platforms/GPL564.yaml +7 -0
  198. data/install_scripts/GEO/platforms/GPL57.yaml +7 -0
  199. data/install_scripts/GEO/platforms/GPL570.yaml +4 -0
  200. data/install_scripts/GEO/platforms/GPL571.yaml +4 -0
  201. data/install_scripts/GEO/platforms/GPL576.yaml +7 -0
  202. data/install_scripts/GEO/platforms/GPL58.yaml +7 -0
  203. data/install_scripts/GEO/platforms/GPL5823.yaml +4 -0
  204. data/install_scripts/GEO/platforms/GPL59.yaml +7 -0
  205. data/install_scripts/GEO/platforms/GPL5915.yaml +4 -0
  206. data/install_scripts/GEO/platforms/GPL5947.yaml +7 -0
  207. data/install_scripts/GEO/platforms/GPL61.yaml +7 -0
  208. data/install_scripts/GEO/platforms/GPL64.yaml +7 -0
  209. data/install_scripts/GEO/platforms/GPL6419.yaml +7 -0
  210. data/install_scripts/GEO/platforms/GPL6424.yaml +7 -0
  211. data/install_scripts/GEO/platforms/GPL65.yaml +7 -0
  212. data/install_scripts/GEO/platforms/GPL6574.yaml +4 -0
  213. data/install_scripts/GEO/platforms/GPL6649.yaml +4 -0
  214. data/install_scripts/GEO/platforms/GPL67.yaml +7 -0
  215. data/install_scripts/GEO/platforms/GPL6720.yaml +7 -0
  216. data/install_scripts/GEO/platforms/GPL7054.yaml +4 -0
  217. data/install_scripts/GEO/platforms/GPL737.yaml +7 -0
  218. data/install_scripts/GEO/platforms/GPL738.yaml +7 -0
  219. data/install_scripts/GEO/platforms/GPL74.yaml +4 -0
  220. data/install_scripts/GEO/platforms/GPL75.yaml +4 -0
  221. data/install_scripts/GEO/platforms/GPL76.yaml +4 -0
  222. data/install_scripts/GEO/platforms/GPL764.yaml +7 -0
  223. data/install_scripts/GEO/platforms/GPL772.yaml +7 -0
  224. data/install_scripts/GEO/platforms/GPL782.yaml +7 -0
  225. data/install_scripts/GEO/platforms/GPL783.yaml +7 -0
  226. data/install_scripts/GEO/platforms/GPL784.yaml +7 -0
  227. data/install_scripts/GEO/platforms/GPL80.yaml +4 -0
  228. data/install_scripts/GEO/platforms/GPL81.yaml +4 -0
  229. data/install_scripts/GEO/platforms/GPL82.yaml +4 -0
  230. data/install_scripts/GEO/platforms/GPL83.yaml +4 -0
  231. data/install_scripts/GEO/platforms/GPL85.yaml +4 -0
  232. data/install_scripts/GEO/platforms/GPL86.yaml +4 -0
  233. data/install_scripts/GEO/platforms/GPL87.yaml +4 -0
  234. data/install_scripts/GEO/platforms/GPL870.yaml +7 -0
  235. data/install_scripts/GEO/platforms/GPL875.yaml +7 -0
  236. data/install_scripts/GEO/platforms/GPL884.yaml +7 -0
  237. data/install_scripts/GEO/platforms/GPL887.yaml +7 -0
  238. data/install_scripts/GEO/platforms/GPL89.yaml +4 -0
  239. data/install_scripts/GEO/platforms/GPL890.yaml +7 -0
  240. data/install_scripts/GEO/platforms/GPL891.yaml +7 -0
  241. data/install_scripts/GEO/platforms/GPL90.yaml +7 -0
  242. data/install_scripts/GEO/platforms/GPL91.yaml +4 -0
  243. data/install_scripts/GEO/platforms/GPL92.yaml +4 -0
  244. data/install_scripts/GEO/platforms/GPL920.yaml +7 -0
  245. data/install_scripts/GEO/platforms/GPL922.yaml +7 -0
  246. data/install_scripts/GEO/platforms/GPL924.yaml +7 -0
  247. data/install_scripts/GEO/platforms/GPL93.yaml +4 -0
  248. data/install_scripts/GEO/platforms/GPL96.yaml +4 -0
  249. data/install_scripts/GEO/platforms/GPL968.yaml +4 -0
  250. data/install_scripts/GEO/platforms/GPL97.yaml +4 -0
  251. data/install_scripts/GEO/platforms/GPL98.yaml +7 -0
  252. data/install_scripts/GEO/platforms/GPL981.yaml +7 -0
  253. data/install_scripts/GEO/platforms/GPL99.yaml +7 -0
  254. data/install_scripts/GEO/platforms/GPL999.yaml +7 -0
  255. data/install_scripts/GEO/series/GSE10018.yaml +61 -0
  256. data/install_scripts/GEO/series/GSE1002.yaml +135 -0
  257. data/install_scripts/GEO/series/GSE10066.yaml +31 -0
  258. data/install_scripts/GEO/series/GSE10073.yaml +19 -0
  259. data/install_scripts/GEO/series/GSE10091.yaml +15 -0
  260. data/install_scripts/GEO/series/GSE101.yaml +17 -0
  261. data/install_scripts/GEO/series/GSE10100.yaml +15 -0
  262. data/install_scripts/GEO/series/GSE10101.yaml +15 -0
  263. data/install_scripts/GEO/series/GSE10102.yaml +15 -0
  264. data/install_scripts/GEO/series/GSE10267.yaml +37 -0
  265. data/install_scripts/GEO/series/GSE10268.yaml +115 -0
  266. data/install_scripts/GEO/series/GSE10279.yaml +23 -0
  267. data/install_scripts/GEO/series/GSE103.yaml +19 -0
  268. data/install_scripts/GEO/series/GSE104.yaml +19 -0
  269. data/install_scripts/GEO/series/GSE10514.yaml +27 -0
  270. data/install_scripts/GEO/series/GSE10521.yaml +56 -0
  271. data/install_scripts/GEO/series/GSE10554.yaml +19 -0
  272. data/install_scripts/GEO/series/GSE1073.yaml +127 -0
  273. data/install_scripts/GEO/series/GSE10860.yaml +25 -0
  274. data/install_scripts/GEO/series/GSE10930.yaml +15 -0
  275. data/install_scripts/GEO/series/GSE10933.yaml +15 -0
  276. data/install_scripts/GEO/series/GSE10944.yaml +21 -0
  277. data/install_scripts/GEO/series/GSE10947.yaml +21 -0
  278. data/install_scripts/GEO/series/GSE10948.yaml +21 -0
  279. data/install_scripts/GEO/series/GSE11061.yaml +19 -0
  280. data/install_scripts/GEO/series/GSE11071.yaml +67 -0
  281. data/install_scripts/GEO/series/GSE11111.yaml +25 -0
  282. data/install_scripts/GEO/series/GSE11236.yaml +25 -0
  283. data/install_scripts/GEO/series/GSE11282.yaml +19 -0
  284. data/install_scripts/GEO/series/GSE11377.yaml +19 -0
  285. data/install_scripts/GEO/series/GSE11380.yaml +13 -0
  286. data/install_scripts/GEO/series/GSE11397.yaml +55 -0
  287. data/install_scripts/GEO/series/GSE11412.yaml +11 -0
  288. data/install_scripts/GEO/series/GSE11452.yaml +354 -0
  289. data/install_scripts/GEO/series/GSE11620.yaml +33 -0
  290. data/install_scripts/GEO/series/GSE11621.yaml +31 -0
  291. data/install_scripts/GEO/series/GSE11651.yaml +94 -0
  292. data/install_scripts/GEO/series/GSE11754.yaml +29 -0
  293. data/install_scripts/GEO/series/GSE11799.yaml +59 -0
  294. data/install_scripts/GEO/series/GSE11856.yaml +11 -0
  295. data/install_scripts/GEO/series/GSE11878.yaml +19 -0
  296. data/install_scripts/GEO/series/GSE11983.yaml +15 -0
  297. data/install_scripts/GEO/series/GSE12004.yaml +41 -0
  298. data/install_scripts/GEO/series/GSE12055.yaml +109 -0
  299. data/install_scripts/GEO/series/GSE12061.yaml +13 -0
  300. data/install_scripts/GEO/series/GSE12104.yaml +10 -0
  301. data/install_scripts/GEO/series/GSE12138.yaml +13 -0
  302. data/install_scripts/GEO/series/GSE12150.yaml +32 -0
  303. data/install_scripts/GEO/series/GSE12684.yaml +47 -0
  304. data/install_scripts/GEO/series/GSE12685.yaml +34 -0
  305. data/install_scripts/GEO/series/GSE1365.yaml +14 -0
  306. data/install_scripts/GEO/series/GSE1404.yaml +596 -0
  307. data/install_scripts/GEO/series/GSE1492.yaml +15 -0
  308. data/install_scripts/GEO/series/GSE15222.yaml +731 -0
  309. data/install_scripts/GEO/series/GSE1553.yaml +23 -0
  310. data/install_scripts/GEO/series/GSE1617.yaml +39 -0
  311. data/install_scripts/GEO/series/GSE1688.yaml +36 -0
  312. data/install_scripts/GEO/series/GSE1693.yaml +60 -0
  313. data/install_scripts/GEO/series/GSE1752.yaml +32 -0
  314. data/install_scripts/GEO/series/GSE1753.yaml +16 -0
  315. data/install_scripts/GEO/series/GSE1754.yaml +19 -0
  316. data/install_scripts/GEO/series/GSE1758.yaml +15 -0
  317. data/install_scripts/GEO/series/GSE1759.yaml +18 -0
  318. data/install_scripts/GEO/series/GSE1760.yaml +18 -0
  319. data/install_scripts/GEO/series/GSE1763.yaml +19 -0
  320. data/install_scripts/GEO/series/GSE1915.yaml +39 -0
  321. data/install_scripts/GEO/series/GSE1927.yaml +14 -0
  322. data/install_scripts/GEO/series/GSE1941.yaml +23 -0
  323. data/install_scripts/GEO/series/GSE1942.yaml +31 -0
  324. data/install_scripts/GEO/series/GSE1944.yaml +58 -0
  325. data/install_scripts/GEO/series/GSE1975.yaml +65 -0
  326. data/install_scripts/GEO/series/GSE20.yaml +24 -0
  327. data/install_scripts/GEO/series/GSE2107.yaml +14 -0
  328. data/install_scripts/GEO/series/GSE2159.yaml +31 -0
  329. data/install_scripts/GEO/series/GSE2246.yaml +157 -0
  330. data/install_scripts/GEO/series/GSE2263.yaml +57 -0
  331. data/install_scripts/GEO/series/GSE2267.yaml +155 -0
  332. data/install_scripts/GEO/series/GSE23.yaml +58 -0
  333. data/install_scripts/GEO/series/GSE2329.yaml +43 -0
  334. data/install_scripts/GEO/series/GSE2330.yaml +55 -0
  335. data/install_scripts/GEO/series/GSE2349.yaml +19 -0
  336. data/install_scripts/GEO/series/GSE2412.yaml +58 -0
  337. data/install_scripts/GEO/series/GSE2419.yaml +27 -0
  338. data/install_scripts/GEO/series/GSE2420.yaml +29 -0
  339. data/install_scripts/GEO/series/GSE2434.yaml +37 -0
  340. data/install_scripts/GEO/series/GSE2526.yaml +23 -0
  341. data/install_scripts/GEO/series/GSE2579.yaml +19 -0
  342. data/install_scripts/GEO/series/GSE2806.yaml +11 -0
  343. data/install_scripts/GEO/series/GSE2831.yaml +35 -0
  344. data/install_scripts/GEO/series/GSE2832.yaml +17 -0
  345. data/install_scripts/GEO/series/GSE29.yaml +16 -0
  346. data/install_scripts/GEO/series/GSE3006.yaml +35 -0
  347. data/install_scripts/GEO/series/GSE3043.yaml +18 -0
  348. data/install_scripts/GEO/series/GSE3122.yaml +12 -0
  349. data/install_scripts/GEO/series/GSE3130.yaml +12 -0
  350. data/install_scripts/GEO/series/GSE3151.yaml +118 -0
  351. data/install_scripts/GEO/series/GSE3160.yaml +31 -0
  352. data/install_scripts/GEO/series/GSE3190.yaml +14 -0
  353. data/install_scripts/GEO/series/GSE3205.yaml +36 -0
  354. data/install_scripts/GEO/series/GSE3206.yaml +23 -0
  355. data/install_scripts/GEO/series/GSE3315.yaml +13 -0
  356. data/install_scripts/GEO/series/GSE3335.yaml +15 -0
  357. data/install_scripts/GEO/series/GSE34.yaml +31 -0
  358. data/install_scripts/GEO/series/GSE3470.yaml +15 -0
  359. data/install_scripts/GEO/series/GSE35.yaml +80 -0
  360. data/install_scripts/GEO/series/GSE3503.yaml +19 -0
  361. data/install_scripts/GEO/series/GSE3683.yaml +83 -0
  362. data/install_scripts/GEO/series/GSE3684.yaml +19 -0
  363. data/install_scripts/GEO/series/GSE3685.yaml +31 -0
  364. data/install_scripts/GEO/series/GSE3686.yaml +63 -0
  365. data/install_scripts/GEO/series/GSE3687.yaml +83 -0
  366. data/install_scripts/GEO/series/GSE3802.yaml +19 -0
  367. data/install_scripts/GEO/series/GSE3803.yaml +19 -0
  368. data/install_scripts/GEO/series/GSE3804.yaml +19 -0
  369. data/install_scripts/GEO/series/GSE3805.yaml +19 -0
  370. data/install_scripts/GEO/series/GSE3813.yaml +9 -0
  371. data/install_scripts/GEO/series/GSE3814.yaml +71 -0
  372. data/install_scripts/GEO/series/GSE3815.yaml +75 -0
  373. data/install_scripts/GEO/series/GSE3817.yaml +13 -0
  374. data/install_scripts/GEO/series/GSE3818.yaml +15 -0
  375. data/install_scripts/GEO/series/GSE3819.yaml +13 -0
  376. data/install_scripts/GEO/series/GSE3820.yaml +61 -0
  377. data/install_scripts/GEO/series/GSE3821.yaml +55 -0
  378. data/install_scripts/GEO/series/GSE3844.yaml +11 -0
  379. data/install_scripts/GEO/series/GSE3853.yaml +31 -0
  380. data/install_scripts/GEO/series/GSE3935.yaml +12 -0
  381. data/install_scripts/GEO/series/GSE3969.yaml +14 -0
  382. data/install_scripts/GEO/series/GSE4049.yaml +80 -0
  383. data/install_scripts/GEO/series/GSE4144.yaml +9 -0
  384. data/install_scripts/GEO/series/GSE4261.yaml +59 -0
  385. data/install_scripts/GEO/series/GSE4295.yaml +63 -0
  386. data/install_scripts/GEO/series/GSE4398.yaml +50 -0
  387. data/install_scripts/GEO/series/GSE4719.yaml +76 -0
  388. data/install_scripts/GEO/series/GSE4720.yaml +78 -0
  389. data/install_scripts/GEO/series/GSE4721.yaml +14 -0
  390. data/install_scripts/GEO/series/GSE4807.yaml +67 -0
  391. data/install_scripts/GEO/series/GSE4826.yaml +39 -0
  392. data/install_scripts/GEO/series/GSE4934.yaml +23 -0
  393. data/install_scripts/GEO/series/GSE5027.yaml +31 -0
  394. data/install_scripts/GEO/series/GSE5070.yaml +25 -0
  395. data/install_scripts/GEO/series/GSE5238.yaml +31 -0
  396. data/install_scripts/GEO/series/GSE5267.yaml +55 -0
  397. data/install_scripts/GEO/series/GSE5281.yaml +492 -0
  398. data/install_scripts/GEO/series/GSE5290.yaml +24 -0
  399. data/install_scripts/GEO/series/GSE5376.yaml +107 -0
  400. data/install_scripts/GEO/series/GSE5575.yaml +13 -0
  401. data/install_scripts/GEO/series/GSE5835.yaml +25 -0
  402. data/install_scripts/GEO/series/GSE5836.yaml +37 -0
  403. data/install_scripts/GEO/series/GSE5837.yaml +37 -0
  404. data/install_scripts/GEO/series/GSE5938.yaml +187 -0
  405. data/install_scripts/GEO/series/GSE600.yaml +29 -0
  406. data/install_scripts/GEO/series/GSE6018.yaml +55 -0
  407. data/install_scripts/GEO/series/GSE6066.yaml +20 -0
  408. data/install_scripts/GEO/series/GSE6067.yaml +31 -0
  409. data/install_scripts/GEO/series/GSE6068.yaml +55 -0
  410. data/install_scripts/GEO/series/GSE6070.yaml +31 -0
  411. data/install_scripts/GEO/series/GSE6071.yaml +30 -0
  412. data/install_scripts/GEO/series/GSE6072.yaml +37 -0
  413. data/install_scripts/GEO/series/GSE6101.yaml +26 -0
  414. data/install_scripts/GEO/series/GSE6111.yaml +20 -0
  415. data/install_scripts/GEO/series/GSE6190.yaml +30 -0
  416. data/install_scripts/GEO/series/GSE6277.yaml +19 -0
  417. data/install_scripts/GEO/series/GSE6331.yaml +51 -0
  418. data/install_scripts/GEO/series/GSE6346.yaml +49 -0
  419. data/install_scripts/GEO/series/GSE6358.yaml +22 -0
  420. data/install_scripts/GEO/series/GSE6405.yaml +36 -0
  421. data/install_scripts/GEO/series/GSE6450.yaml +51 -0
  422. data/install_scripts/GEO/series/GSE6687.yaml +15 -0
  423. data/install_scripts/GEO/series/GSE6705.yaml +19 -0
  424. data/install_scripts/GEO/series/GSE6801.yaml +27 -0
  425. data/install_scripts/GEO/series/GSE6847.yaml +18 -0
  426. data/install_scripts/GEO/series/GSE6870.yaml +23 -0
  427. data/install_scripts/GEO/series/GSE7103.yaml +28 -0
  428. data/install_scripts/GEO/series/GSE7140.yaml +19 -0
  429. data/install_scripts/GEO/series/GSE7188.yaml +23 -0
  430. data/install_scripts/GEO/series/GSE7261.yaml +16 -0
  431. data/install_scripts/GEO/series/GSE7337.yaml +19 -0
  432. data/install_scripts/GEO/series/GSE7338.yaml +19 -0
  433. data/install_scripts/GEO/series/GSE7362.yaml +123 -0
  434. data/install_scripts/GEO/series/GSE7369.yaml +15 -0
  435. data/install_scripts/GEO/series/GSE7525.yaml +33 -0
  436. data/install_scripts/GEO/series/GSE7537.yaml +27 -0
  437. data/install_scripts/GEO/series/GSE7645.yaml +152 -0
  438. data/install_scripts/GEO/series/GSE7660.yaml +41 -0
  439. data/install_scripts/GEO/series/GSE7820.yaml +30 -0
  440. data/install_scripts/GEO/series/GSE79.yaml +32 -0
  441. data/install_scripts/GEO/series/GSE8035.yaml +19 -0
  442. data/install_scripts/GEO/series/GSE8088.yaml +13 -0
  443. data/install_scripts/GEO/series/GSE8089.yaml +19 -0
  444. data/install_scripts/GEO/series/GSE8111.yaml +15 -0
  445. data/install_scripts/GEO/series/GSE8237.yaml +35 -0
  446. data/install_scripts/GEO/series/GSE8326.yaml +37 -0
  447. data/install_scripts/GEO/series/GSE8399.yaml +13 -0
  448. data/install_scripts/GEO/series/GSE850.yaml +15 -0
  449. data/install_scripts/GEO/series/GSE8506.yaml +32 -0
  450. data/install_scripts/GEO/series/GSE8542.yaml +47 -0
  451. data/install_scripts/GEO/series/GSE8558.yaml +19 -0
  452. data/install_scripts/GEO/series/GSE8559.yaml +47 -0
  453. data/install_scripts/GEO/series/GSE8613.yaml +19 -0
  454. data/install_scripts/GEO/series/GSE8629.yaml +18 -0
  455. data/install_scripts/GEO/series/GSE8729.yaml +19 -0
  456. data/install_scripts/GEO/series/GSE8761.yaml +55 -0
  457. data/install_scripts/GEO/series/GSE8765.yaml +15 -0
  458. data/install_scripts/GEO/series/GSE8805.yaml +64 -0
  459. data/install_scripts/GEO/series/GSE8825.yaml +79 -0
  460. data/install_scripts/GEO/series/GSE8895.yaml +31 -0
  461. data/install_scripts/GEO/series/GSE8897.yaml +17 -0
  462. data/install_scripts/GEO/series/GSE8898.yaml +18 -0
  463. data/install_scripts/GEO/series/GSE8900.yaml +43 -0
  464. data/install_scripts/GEO/series/GSE8982.yaml +106 -0
  465. data/install_scripts/GEO/series/GSE920.yaml +20 -0
  466. data/install_scripts/GEO/series/GSE960.yaml +10 -0
  467. data/install_scripts/GEO/series/GSE961.yaml +14 -0
  468. data/install_scripts/GEO/series/GSE962.yaml +20 -0
  469. data/install_scripts/GEO/series/GSE963.yaml +14 -0
  470. data/install_scripts/GEO/series/GSE964.yaml +14 -0
  471. data/install_scripts/GEO/series/GSE965.yaml +14 -0
  472. data/install_scripts/GEO/series/GSE966.yaml +14 -0
  473. data/install_scripts/GEO/series/GSE993.yaml +9 -0
  474. data/lib/MARQ.rb +79 -0
  475. data/lib/MARQ/CustomDS.rb +99 -0
  476. data/lib/MARQ/GEO.rb +585 -0
  477. data/lib/MARQ/ID.rb +148 -0
  478. data/lib/MARQ/MADB.rb +243 -0
  479. data/lib/MARQ/annotations.rb +740 -0
  480. data/lib/MARQ/fdr.rb +177 -0
  481. data/lib/MARQ/main.rb +227 -0
  482. data/lib/MARQ/rankproduct.rb +146 -0
  483. data/lib/MARQ/score.rb +395 -0
  484. data/merb/Rakefile +35 -0
  485. data/merb/app/controllers/application.rb +2 -0
  486. data/merb/app/controllers/exceptions.rb +13 -0
  487. data/merb/app/controllers/help.rb +22 -0
  488. data/merb/app/controllers/main.rb +72 -0
  489. data/merb/app/controllers/normalize.rb +41 -0
  490. data/merb/app/controllers/results.rb +247 -0
  491. data/merb/app/controllers/series.rb +44 -0
  492. data/merb/app/helpers/global_helpers.rb +5 -0
  493. data/merb/app/helpers/main_helper.rb +5 -0
  494. data/merb/app/helpers/results_helper.rb +50 -0
  495. data/merb/app/stylesheets/marq.sass +561 -0
  496. data/merb/app/stylesheets/marq_mixins.sass +23 -0
  497. data/merb/app/stylesheets/rounded_corners.sass +35 -0
  498. data/merb/app/views/exceptions/not_acceptable.html.erb +63 -0
  499. data/merb/app/views/exceptions/not_found.html.erb +47 -0
  500. data/merb/app/views/help/_menu.html.haml +4 -0
  501. data/merb/app/views/help/index.html.haml +110 -0
  502. data/merb/app/views/help/meth.html.haml +301 -0
  503. data/merb/app/views/help/quick.html.haml +149 -0
  504. data/merb/app/views/layout/application.html.haml +27 -0
  505. data/merb/app/views/main/index.html.haml +96 -0
  506. data/merb/app/views/normalize/index.html.haml +51 -0
  507. data/merb/app/views/partials/_annotations.html.haml +37 -0
  508. data/merb/app/views/partials/_enrichment.html.haml +17 -0
  509. data/merb/app/views/partials/_experiment.html.haml +33 -0
  510. data/merb/app/views/partials/_ie.html.haml +19 -0
  511. data/merb/app/views/partials/_video.html.haml +5 -0
  512. data/merb/app/views/results/compare.html.haml +161 -0
  513. data/merb/app/views/results/error.html.haml +5 -0
  514. data/merb/app/views/results/explore_hits.html.haml +54 -0
  515. data/merb/app/views/results/images.html.haml +18 -0
  516. data/merb/app/views/results/main.html.haml +125 -0
  517. data/merb/app/views/results/wait.html.haml +10 -0
  518. data/merb/app/views/series/main.html.haml +99 -0
  519. data/merb/autotest/discover.rb +1 -0
  520. data/merb/autotest/merb.rb +149 -0
  521. data/merb/autotest/merb_rspec.rb +165 -0
  522. data/merb/config.ru +76 -0
  523. data/merb/config/environments/development.rb +15 -0
  524. data/merb/config/environments/production.rb +10 -0
  525. data/merb/config/environments/rake.rb +11 -0
  526. data/merb/config/environments/staging.rb +10 -0
  527. data/merb/config/environments/test.rb +12 -0
  528. data/merb/config/init.rb +66 -0
  529. data/merb/config/rack.rb +11 -0
  530. data/merb/config/router.rb +64 -0
  531. data/merb/doc/rdoc/generators/merb_generator.rb +1362 -0
  532. data/merb/doc/rdoc/generators/template/merb/api_grease.js +640 -0
  533. data/merb/doc/rdoc/generators/template/merb/index.html.erb +37 -0
  534. data/merb/doc/rdoc/generators/template/merb/merb.css +252 -0
  535. data/merb/doc/rdoc/generators/template/merb/merb.rb +351 -0
  536. data/merb/doc/rdoc/generators/template/merb/merb_doc_styles.css +492 -0
  537. data/merb/doc/rdoc/generators/template/merb/prototype.js +2515 -0
  538. data/merb/lib/helper.rb +452 -0
  539. data/merb/public/favicon.ico +0 -0
  540. data/merb/public/images/guide/annotations.png +0 -0
  541. data/merb/public/images/guide/compare.png +0 -0
  542. data/merb/public/images/guide/compare_page.png +0 -0
  543. data/merb/public/images/guide/download.png +0 -0
  544. data/merb/public/images/guide/genes.png +0 -0
  545. data/merb/public/images/guide/hits.png +0 -0
  546. data/merb/public/images/guide/name.png +0 -0
  547. data/merb/public/images/guide/organism.png +0 -0
  548. data/merb/public/images/guide/table.png +0 -0
  549. data/merb/public/images/loadingAnimation.gif +0 -0
  550. data/merb/public/images/logo_ARTECS.jpg +0 -0
  551. data/merb/public/images/logo_BCU.jpg +0 -0
  552. data/merb/public/images/logo_MICRO.png +0 -0
  553. data/merb/public/images/macFFBgHack.png +0 -0
  554. data/merb/public/images/merb.jpg +0 -0
  555. data/merb/public/images/meth/G.gif +0 -0
  556. data/merb/public/images/meth/MARQ.gif +0 -0
  557. data/merb/public/images/meth/PS_bottom.gif +0 -0
  558. data/merb/public/images/meth/PS_bottom_formula.gif +0 -0
  559. data/merb/public/images/meth/PS_top.gif +0 -0
  560. data/merb/public/images/meth/PS_top_formula.gif +0 -0
  561. data/merb/public/images/meth/Q.gif +0 -0
  562. data/merb/public/images/meth/Rplot.png +0 -0
  563. data/merb/public/images/meth/S_bottom.gif +0 -0
  564. data/merb/public/images/meth/S_diff.gif +0 -0
  565. data/merb/public/images/meth/S_down.gif +0 -0
  566. data/merb/public/images/meth/S_top.gif +0 -0
  567. data/merb/public/images/meth/S_up.gif +0 -0
  568. data/merb/public/images/meth/alpha.gif +0 -0
  569. data/merb/public/images/meth/beta_0.gif +0 -0
  570. data/merb/public/images/meth/beta_1.gif +0 -0
  571. data/merb/public/images/meth/d.gif +0 -0
  572. data/merb/public/images/meth/d_formula.gif +0 -0
  573. data/merb/public/images/meth/d_noabs.gif +0 -0
  574. data/merb/public/images/meth/d_range.gif +0 -0
  575. data/merb/public/images/meth/g.gif +0 -0
  576. data/merb/public/images/meth/i.gif +0 -0
  577. data/merb/public/images/meth/m.gif +0 -0
  578. data/merb/public/images/meth/p.gif +0 -0
  579. data/merb/public/images/meth/penalty.gif +0 -0
  580. data/merb/public/images/meth/q.gif +0 -0
  581. data/merb/public/images/meth/w.gif +0 -0
  582. data/merb/public/images/meth/w_formula.gif +0 -0
  583. data/merb/public/images/meth/w_weight.gif +0 -0
  584. data/merb/public/images/meth/weight.gif +0 -0
  585. data/merb/public/images/meth/weight_function.gif +0 -0
  586. data/merb/public/images/top.png +0 -0
  587. data/merb/public/images/top2.png +0 -0
  588. data/merb/public/images/wait.gif +0 -0
  589. data/merb/public/javascripts/jquery-ui.core.js +519 -0
  590. data/merb/public/javascripts/jquery-ui.hitarea.js +168 -0
  591. data/merb/public/javascripts/jquery.js +19 -0
  592. data/merb/public/javascripts/jquery.scrollTo.js +11 -0
  593. data/merb/public/javascripts/jquery.tablescroll.js +124 -0
  594. data/merb/public/javascripts/jquery.tabs.js +642 -0
  595. data/merb/public/javascripts/marq.js +51 -0
  596. data/merb/public/javascripts/marq_pages.js +504 -0
  597. data/merb/public/javascripts/thickbox.js +320 -0
  598. data/merb/public/javascripts/wz_jsgraphics.js +1108 -0
  599. data/merb/public/merb.fcgi +22 -0
  600. data/merb/public/plugins/dialog/javascripts/jquery-ui.dialog.js +44 -0
  601. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_flat_0_aaaaaa_40x100.png +0 -0
  602. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_flat_75_ffffff_40x100.png +0 -0
  603. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_glass_55_fbf9ee_1x400.png +0 -0
  604. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_glass_65_ffffff_1x400.png +0 -0
  605. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_glass_75_dadada_1x400.png +0 -0
  606. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_glass_75_e6e6e6_1x400.png +0 -0
  607. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_glass_95_fef1ec_1x400.png +0 -0
  608. data/merb/public/plugins/dialog/stylesheets/images/ui-bg_highlight-soft_75_cccccc_1x100.png +0 -0
  609. data/merb/public/plugins/dialog/stylesheets/images/ui-icons_222222_256x240.png +0 -0
  610. data/merb/public/plugins/dialog/stylesheets/images/ui-icons_2e83ff_256x240.png +0 -0
  611. data/merb/public/plugins/dialog/stylesheets/images/ui-icons_454545_256x240.png +0 -0
  612. data/merb/public/plugins/dialog/stylesheets/images/ui-icons_888888_256x240.png +0 -0
  613. data/merb/public/plugins/dialog/stylesheets/images/ui-icons_cd0a0a_256x240.png +0 -0
  614. data/merb/public/plugins/dialog/stylesheets/jquery-ui.dialog.css +404 -0
  615. data/merb/public/plugins/tablesorter/images/asc.gif +0 -0
  616. data/merb/public/plugins/tablesorter/images/bg.gif +0 -0
  617. data/merb/public/plugins/tablesorter/images/blue.zip +0 -0
  618. data/merb/public/plugins/tablesorter/images/desc.gif +0 -0
  619. data/merb/public/plugins/tablesorter/javascripts/jquery.tablesorter.js +2 -0
  620. data/merb/public/plugins/tablesorter/stylesheets/jquery.tablesorter.css +39 -0
  621. data/merb/public/robots.txt +5 -0
  622. data/merb/public/stylesheets/thickbox.css +163 -0
  623. data/merb/spec/requests/main_spec.rb +7 -0
  624. data/merb/spec/requests/results_spec.rb +7 -0
  625. data/merb/spec/spec.opts +0 -0
  626. data/merb/spec/spec_helper.rb +20 -0
  627. data/merb/tasks/merb.thor/app_script.rb +31 -0
  628. data/merb/tasks/merb.thor/common.rb +68 -0
  629. data/merb/tasks/merb.thor/gem_ext.rb +125 -0
  630. data/merb/tasks/merb.thor/main.thor +150 -0
  631. data/merb/tasks/merb.thor/ops.rb +93 -0
  632. data/merb/tasks/merb.thor/utils.rb +40 -0
  633. data/tasks/install.rake +21 -0
  634. data/webservice/MARQWS.rb +167 -0
  635. metadata +798 -0
data/install_scripts/GEO/series/GSE1492.yaml ADDED
@@ -0,0 +1,15 @@
1
+ ---
2
+ :title: Gene expression profile of abf1-1 mutant at 36 degrees C
3
+ :arrays:
4
+ GSM25879:
5
+ mutant: abf1
6
+ GSM25880:
7
+ mutant: abf1
8
+ GSM25881:
9
+ mutant: abf1
10
+ GSM25882:
11
+ mutant: abf1
12
+ :description: |-
13
+ The abf1-1 mutant and wild type cells were grown at 30 degrees C in YPAD until OD600 reached 1.0-1.2. The same volume of 42 degrees C preheated YPAD was added for each flask. After 45 min incubation at 36 degrees C, cells were harvested and RNA was isolated. Four repeats of microarray results are in this series.
14
+ Keywords: repeat sample
15
+ :platform: GPL1300
data/install_scripts/GEO/series/GSE15222.yaml ADDED
@@ -0,0 +1,731 @@
1
+ ---
2
+ :arrays:
3
+ GSM388299:
4
+ disease: Alzheimer
5
+ GSM225685:
6
+ disease: control
7
+ GSM226158:
8
+ disease: control
9
+ GSM225739:
10
+ disease: control
11
+ GSM225927:
12
+ disease: control
13
+ GSM225953:
14
+ disease: control
15
+ GSM225928:
16
+ disease: control
17
+ GSM225954:
18
+ disease: control
19
+ GSM225686:
20
+ disease: control
21
+ GSM226159:
22
+ disease: control
23
+ GSM225929:
24
+ disease: control
25
+ GSM225955:
26
+ disease: control
27
+ GSM388300:
28
+ disease: Alzheimer
29
+ GSM225687:
30
+ disease: control
31
+ GSM225956:
32
+ disease: control
33
+ GSM388220:
34
+ disease: Alzheimer
35
+ GSM388301:
36
+ disease: Alzheimer
37
+ GSM225688:
38
+ disease: control
39
+ GSM225957:
40
+ disease: control
41
+ GSM388221:
42
+ disease: Alzheimer
43
+ GSM388302:
44
+ disease: Alzheimer
45
+ GSM225689:
46
+ disease: control
47
+ GSM225958:
48
+ disease: control
49
+ GSM388330:
50
+ disease: Alzheimer
51
+ GSM388303:
52
+ disease: Alzheimer
53
+ GSM225959:
54
+ disease: control
55
+ GSM388222:
56
+ disease: Alzheimer
57
+ GSM388331:
58
+ disease: Alzheimer
59
+ GSM388304:
60
+ disease: Alzheimer
61
+ GSM388223:
62
+ disease: Alzheimer
63
+ GSM388250:
64
+ disease: Alzheimer
65
+ GSM388305:
66
+ disease: Alzheimer
67
+ GSM388224:
68
+ disease: Alzheimer
69
+ GSM388251:
70
+ disease: Alzheimer
71
+ GSM388332:
72
+ disease: Alzheimer
73
+ GSM388306:
74
+ disease: Alzheimer
75
+ GSM388225:
76
+ disease: Alzheimer
77
+ GSM388252:
78
+ disease: Alzheimer
79
+ GSM388360:
80
+ disease: Alzheimer
81
+ GSM388333:
82
+ disease: Alzheimer
83
+ GSM388307:
84
+ disease: Alzheimer
85
+ GSM388253:
86
+ disease: Alzheimer
87
+ GSM388226:
88
+ disease: Alzheimer
89
+ GSM388361:
90
+ disease: Alzheimer
91
+ GSM388334:
92
+ disease: Alzheimer
93
+ GSM388308:
94
+ disease: Alzheimer
95
+ GSM388254:
96
+ disease: Alzheimer
97
+ GSM388362:
98
+ disease: Alzheimer
99
+ GSM388335:
100
+ disease: Alzheimer
101
+ GSM388309:
102
+ disease: Alzheimer
103
+ GSM388281:
104
+ disease: Alzheimer
105
+ GSM225720:
106
+ disease: control
107
+ GSM388228:
108
+ disease: Alzheimer
109
+ GSM388363:
110
+ disease: Alzheimer
111
+ GSM388336:
112
+ disease: Alzheimer
113
+ GSM388282:
114
+ disease: Alzheimer
115
+ GSM388255:
116
+ disease: Alzheimer
117
+ GSM225721:
118
+ disease: control
119
+ GSM388229:
120
+ disease: Alzheimer
121
+ GSM388390:
122
+ disease: Alzheimer
123
+ GSM388364:
124
+ disease: Alzheimer
125
+ GSM388337:
126
+ disease: Alzheimer
127
+ GSM388256:
128
+ disease: Alzheimer
129
+ GSM226034:
130
+ disease: control
131
+ GSM225722:
132
+ disease: control
133
+ GSM388391:
134
+ disease: Alzheimer
135
+ GSM388338:
136
+ disease: Alzheimer
137
+ GSM388284:
138
+ disease: Alzheimer
139
+ GSM388257:
140
+ disease: Alzheimer
141
+ GSM226035:
142
+ disease: control
143
+ GSM225723:
144
+ disease: control
145
+ GSM388392:
146
+ disease: Alzheimer
147
+ GSM388365:
148
+ disease: Alzheimer
149
+ GSM388339:
150
+ disease: Alzheimer
151
+ GSM388285:
152
+ disease: Alzheimer
153
+ GSM388258:
154
+ disease: Alzheimer
155
+ GSM225670:
156
+ disease: control
157
+ GSM225724:
158
+ disease: control
159
+ GSM225751:
160
+ disease: control
161
+ GSM388393:
162
+ disease: Alzheimer
163
+ GSM388366:
164
+ disease: Alzheimer
165
+ GSM388286:
166
+ disease: Alzheimer
167
+ GSM388259:
168
+ disease: Alzheimer
169
+ GSM226037:
170
+ disease: control
171
+ GSM225671:
172
+ disease: control
173
+ GSM225725:
174
+ disease: control
175
+ GSM388394:
176
+ disease: Alzheimer
177
+ GSM388367:
178
+ disease: Alzheimer
179
+ GSM388287:
180
+ disease: Alzheimer
181
+ GSM225940:
182
+ disease: control
183
+ GSM225672:
184
+ disease: control
185
+ GSM226145:
186
+ disease: control
187
+ GSM225726:
188
+ disease: control
189
+ GSM225752:
190
+ disease: control
191
+ GSM388395:
192
+ disease: Alzheimer
193
+ GSM388368:
194
+ disease: Alzheimer
195
+ GSM225915:
196
+ disease: control
197
+ GSM225941:
198
+ disease: control
199
+ GSM226038:
200
+ disease: control
201
+ GSM225673:
202
+ disease: control
203
+ GSM226146:
204
+ disease: control
205
+ GSM225727:
206
+ disease: control
207
+ GSM225753:
208
+ disease: control
209
+ GSM388396:
210
+ disease: Alzheimer
211
+ GSM388369:
212
+ disease: Alzheimer
213
+ GSM388288:
214
+ disease: Alzheimer
215
+ GSM225916:
216
+ disease: control
217
+ GSM225942:
218
+ disease: control
219
+ GSM226039:
220
+ disease: control
221
+ GSM225674:
222
+ disease: control
223
+ GSM226147:
224
+ disease: control
225
+ GSM225728:
226
+ disease: control
227
+ GSM225754:
228
+ disease: control
229
+ GSM388397:
230
+ disease: Alzheimer
231
+ GSM388289:
232
+ disease: Alzheimer
233
+ GSM225917:
234
+ disease: control
235
+ GSM225943:
236
+ disease: control
237
+ GSM225729:
238
+ disease: control
239
+ GSM225755:
240
+ disease: control
241
+ GSM225918:
242
+ disease: control
243
+ GSM225944:
244
+ disease: control
245
+ GSM225675:
246
+ disease: control
247
+ GSM226148:
248
+ disease: control
249
+ GSM225756:
250
+ disease: control
251
+ GSM225919:
252
+ disease: control
253
+ GSM225945:
254
+ disease: control
255
+ GSM225676:
256
+ disease: control
257
+ GSM226149:
258
+ disease: control
259
+ GSM225757:
260
+ disease: control
261
+ GSM225946:
262
+ disease: control
263
+ GSM225677:
264
+ disease: control
265
+ GSM225758:
266
+ disease: control
267
+ GSM225947:
268
+ disease: control
269
+ GSM225678:
270
+ disease: control
271
+ GSM225759:
272
+ disease: control
273
+ GSM225948:
274
+ disease: control
275
+ GSM225679:
276
+ disease: control
277
+ GSM388320:
278
+ disease: Alzheimer
279
+ GSM225949:
280
+ disease: control
281
+ GSM388240:
282
+ disease: Alzheimer
283
+ GSM388321:
284
+ disease: Alzheimer
285
+ GSM388241:
286
+ disease: Alzheimer
287
+ GSM388322:
288
+ disease: Alzheimer
289
+ GSM388242:
290
+ disease: Alzheimer
291
+ GSM388350:
292
+ disease: Alzheimer
293
+ GSM388323:
294
+ disease: Alzheimer
295
+ GSM388243:
296
+ disease: Alzheimer
297
+ GSM388351:
298
+ disease: Alzheimer
299
+ GSM388324:
300
+ disease: Alzheimer
301
+ GSM388270:
302
+ disease: Alzheimer
303
+ GSM388217:
304
+ disease: Alzheimer
305
+ GSM388352:
306
+ disease: Alzheimer
307
+ GSM388325:
308
+ disease: Alzheimer
309
+ GSM388271:
310
+ disease: Alzheimer
311
+ GSM388244:
312
+ disease: Alzheimer
313
+ GSM388218:
314
+ disease: Alzheimer
315
+ GSM388353:
316
+ disease: Alzheimer
317
+ GSM388326:
318
+ disease: Alzheimer
319
+ GSM388272:
320
+ disease: Alzheimer
321
+ GSM388245:
322
+ disease: Alzheimer
323
+ GSM225711:
324
+ disease: control
325
+ GSM388219:
326
+ disease: Alzheimer
327
+ GSM388380:
328
+ disease: Alzheimer
329
+ GSM388327:
330
+ disease: Alzheimer
331
+ GSM388273:
332
+ disease: Alzheimer
333
+ GSM226050:
334
+ disease: control
335
+ GSM388246:
336
+ disease: Alzheimer
337
+ GSM388381:
338
+ disease: Alzheimer
339
+ GSM388354:
340
+ disease: Alzheimer
341
+ GSM388328:
342
+ disease: Alzheimer
343
+ GSM388274:
344
+ disease: Alzheimer
345
+ GSM226051:
346
+ disease: control
347
+ GSM225713:
348
+ disease: control
349
+ GSM388247:
350
+ disease: Alzheimer
351
+ GSM388382:
352
+ disease: Alzheimer
353
+ GSM388355:
354
+ disease: Alzheimer
355
+ GSM388329:
356
+ disease: Alzheimer
357
+ GSM388275:
358
+ disease: Alzheimer
359
+ GSM226052:
360
+ disease: control
361
+ GSM225714:
362
+ disease: control
363
+ GSM388248:
364
+ disease: Alzheimer
365
+ GSM388383:
366
+ disease: Alzheimer
367
+ GSM388356:
368
+ disease: Alzheimer
369
+ GSM388276:
370
+ disease: Alzheimer
371
+ GSM226053:
372
+ disease: control
373
+ GSM225715:
374
+ disease: control
375
+ GSM226160:
376
+ disease: control
377
+ GSM225741:
378
+ disease: control
379
+ GSM388249:
380
+ disease: Alzheimer
381
+ GSM388384:
382
+ disease: Alzheimer
383
+ GSM388357:
384
+ disease: Alzheimer
385
+ GSM225662:
386
+ disease: control
387
+ GSM225742:
388
+ disease: control
389
+ GSM225930:
390
+ disease: control
391
+ GSM388385:
392
+ disease: Alzheimer
393
+ GSM388358:
394
+ disease: Alzheimer
395
+ GSM388277:
396
+ disease: Alzheimer
397
+ GSM226055:
398
+ disease: control
399
+ GSM225717:
400
+ disease: control
401
+ GSM226162:
402
+ disease: control
403
+ GSM225743:
404
+ disease: control
405
+ GSM225931:
406
+ disease: control
407
+ GSM388386:
408
+ disease: Alzheimer
409
+ GSM388359:
410
+ disease: Alzheimer
411
+ GSM388278:
412
+ disease: Alzheimer
413
+ GSM226082:
414
+ disease: control
415
+ GSM225690:
416
+ disease: control
417
+ GSM225718:
418
+ disease: control
419
+ GSM226163:
420
+ disease: control
421
+ GSM225744:
422
+ disease: control
423
+ GSM225932:
424
+ disease: control
425
+ GSM226056:
426
+ disease: control
427
+ GSM388279:
428
+ disease: Alzheimer
429
+ GSM225664:
430
+ disease: control
431
+ GSM225691:
432
+ disease: control
433
+ GSM225719:
434
+ disease: control
435
+ GSM226164:
436
+ disease: control
437
+ GSM225745:
438
+ disease: control
439
+ GSM225933:
440
+ disease: control
441
+ GSM388387:
442
+ disease: Alzheimer
443
+ GSM225665:
444
+ disease: control
445
+ GSM225692:
446
+ disease: control
447
+ GSM226165:
448
+ disease: control
449
+ GSM225746:
450
+ disease: control
451
+ GSM225934:
452
+ disease: control
453
+ GSM388388:
454
+ disease: Alzheimer
455
+ GSM225666:
456
+ disease: control
457
+ GSM225693:
458
+ disease: control
459
+ GSM225747:
460
+ disease: control
461
+ GSM225935:
462
+ disease: control
463
+ GSM225961:
464
+ disease: control
465
+ GSM388389:
466
+ disease: Alzheimer
467
+ GSM226167:
468
+ disease: control
469
+ GSM225748:
470
+ disease: control
471
+ GSM225936:
472
+ disease: control
473
+ GSM225962:
474
+ disease: control
475
+ GSM225667:
476
+ disease: control
477
+ GSM225695:
478
+ disease: control
479
+ GSM226168:
480
+ disease: control
481
+ GSM225749:
482
+ disease: control
483
+ GSM225937:
484
+ disease: control
485
+ GSM225963:
486
+ disease: control
487
+ GSM225668:
488
+ disease: control
489
+ GSM225938:
490
+ disease: control
491
+ GSM225964:
492
+ disease: control
493
+ GSM225669:
494
+ disease: control
495
+ GSM225696:
496
+ disease: control
497
+ GSM225939:
498
+ disease: control
499
+ GSM225965:
500
+ disease: control
501
+ GSM388310:
502
+ disease: Alzheimer
503
+ GSM388230:
504
+ disease: Alzheimer
505
+ GSM225697:
506
+ disease: control
507
+ GSM388311:
508
+ disease: Alzheimer
509
+ GSM388231:
510
+ disease: Alzheimer
511
+ GSM225698:
512
+ disease: control
513
+ GSM388312:
514
+ disease: Alzheimer
515
+ GSM388232:
516
+ disease: Alzheimer
517
+ GSM225699:
518
+ disease: control
519
+ GSM388340:
520
+ disease: Alzheimer
521
+ GSM388313:
522
+ disease: Alzheimer
523
+ GSM388341:
524
+ disease: Alzheimer
525
+ GSM388314:
526
+ disease: Alzheimer
527
+ GSM388260:
528
+ disease: Alzheimer
529
+ GSM388233:
530
+ disease: Alzheimer
531
+ GSM388342:
532
+ disease: Alzheimer
533
+ GSM388315:
534
+ disease: Alzheimer
535
+ GSM388261:
536
+ disease: Alzheimer
537
+ GSM388234:
538
+ disease: Alzheimer
539
+ GSM225700:
540
+ disease: control
541
+ GSM388316:
542
+ disease: Alzheimer
543
+ GSM388262:
544
+ disease: Alzheimer
545
+ GSM388235:
546
+ disease: Alzheimer
547
+ GSM225701:
548
+ disease: control
549
+ GSM388370:
550
+ disease: Alzheimer
551
+ GSM388343:
552
+ disease: Alzheimer
553
+ GSM388317:
554
+ disease: Alzheimer
555
+ GSM388263:
556
+ disease: Alzheimer
557
+ GSM388236:
558
+ disease: Alzheimer
559
+ GSM226040:
560
+ disease: control
561
+ GSM225702:
562
+ disease: control
563
+ GSM388371:
564
+ disease: Alzheimer
565
+ GSM388318:
566
+ disease: Alzheimer
567
+ GSM388290:
568
+ disease: Alzheimer
569
+ GSM388264:
570
+ disease: Alzheimer
571
+ GSM388237:
572
+ disease: Alzheimer
573
+ GSM226041:
574
+ disease: control
575
+ GSM225703:
576
+ disease: control
577
+ GSM388372:
578
+ disease: Alzheimer
579
+ GSM388345:
580
+ disease: Alzheimer
581
+ GSM388319:
582
+ disease: Alzheimer
583
+ GSM388291:
584
+ disease: Alzheimer
585
+ GSM388265:
586
+ disease: Alzheimer
587
+ GSM388238:
588
+ disease: Alzheimer
589
+ GSM226042:
590
+ disease: control
591
+ GSM225704:
592
+ disease: control
593
+ GSM225730:
594
+ disease: control
595
+ GSM388373:
596
+ disease: Alzheimer
597
+ GSM388346:
598
+ disease: Alzheimer
599
+ GSM388292:
600
+ disease: Alzheimer
601
+ GSM388239:
602
+ disease: Alzheimer
603
+ GSM225705:
604
+ disease: control
605
+ GSM226150:
606
+ disease: control
607
+ GSM225731:
608
+ disease: control
609
+ GSM388374:
610
+ disease: Alzheimer
611
+ GSM388347:
612
+ disease: Alzheimer
613
+ GSM388266:
614
+ disease: Alzheimer
615
+ GSM226044:
616
+ disease: control
617
+ GSM225652:
618
+ disease: control
619
+ GSM225706:
620
+ disease: control
621
+ GSM226151:
622
+ disease: control
623
+ GSM225732:
624
+ disease: control
625
+ GSM225920:
626
+ disease: control
627
+ GSM388375:
628
+ disease: Alzheimer
629
+ GSM388348:
630
+ disease: Alzheimer
631
+ GSM388294:
632
+ disease: Alzheimer
633
+ GSM388267:
634
+ disease: Alzheimer
635
+ GSM226045:
636
+ disease: control
637
+ GSM225707:
638
+ disease: control
639
+ GSM225733:
640
+ disease: control
641
+ GSM225760:
642
+ disease: control
643
+ GSM225921:
644
+ disease: control
645
+ GSM388349:
646
+ disease: Alzheimer
647
+ GSM388295:
648
+ disease: Alzheimer
649
+ GSM388268:
650
+ disease: Alzheimer
651
+ GSM226046:
652
+ disease: control
653
+ GSM225680:
654
+ disease: control
655
+ GSM225708:
656
+ disease: control
657
+ GSM225734:
658
+ disease: control
659
+ GSM225761:
660
+ disease: control
661
+ GSM225922:
662
+ disease: control
663
+ GSM388376:
664
+ disease: Alzheimer
665
+ GSM388296:
666
+ disease: Alzheimer
667
+ GSM388269:
668
+ disease: Alzheimer
669
+ GSM226047:
670
+ disease: control
671
+ GSM225681:
672
+ disease: control
673
+ GSM225709:
674
+ disease: control
675
+ GSM226154:
676
+ disease: control
677
+ GSM225735:
678
+ disease: control
679
+ GSM225762:
680
+ disease: control
681
+ GSM225923:
682
+ disease: control
683
+ GSM388377:
684
+ disease: Alzheimer
685
+ GSM388297:
686
+ disease: Alzheimer
687
+ GSM226048:
688
+ disease: control
689
+ GSM225682:
690
+ disease: control
691
+ GSM226155:
692
+ disease: control
693
+ GSM225736:
694
+ disease: control
695
+ GSM225924:
696
+ disease: control
697
+ GSM225950:
698
+ disease: control
699
+ GSM388378:
700
+ disease: Alzheimer
701
+ GSM388298:
702
+ disease: Alzheimer
703
+ GSM225683:
704
+ disease: control
705
+ GSM226156:
706
+ disease: control
707
+ GSM225737:
708
+ disease: control
709
+ GSM225763:
710
+ disease: control
711
+ GSM225925:
712
+ disease: control
713
+ GSM225951:
714
+ disease: control
715
+ GSM388379:
716
+ disease: Alzheimer
717
+ GSM226049:
718
+ disease: control
719
+ GSM225684:
720
+ disease: control
721
+ GSM226157:
722
+ disease: control
723
+ GSM225764:
724
+ disease: control
725
+ GSM225926:
726
+ disease: control
727
+ GSM225952:
728
+ disease: control
729
+ :description: "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\xE2\x80\x99s 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."
730
+ :title: "Genetic control of human brain transcript expression in Alzheimer\xE2\x80\x99s disease."
731
+ :platform: GPL2700