MARQ 0.0.1

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  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
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  267. data/install_scripts/GEO/series/GSE103.yaml +19 -0
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  270. data/install_scripts/GEO/series/GSE10521.yaml +56 -0
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  272. data/install_scripts/GEO/series/GSE1073.yaml +127 -0
  273. data/install_scripts/GEO/series/GSE10860.yaml +25 -0
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  300. data/install_scripts/GEO/series/GSE12104.yaml +10 -0
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  302. data/install_scripts/GEO/series/GSE12150.yaml +32 -0
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  305. data/install_scripts/GEO/series/GSE1365.yaml +14 -0
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  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
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1
+ ---
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+ :description: |-
3
+ The highly conserved protein eIF5A found in archaea and all eucaryotes uniquely contains the posttranslationally formed amino acid hypusine. Despite being essential the functions of this protein and its modification remain unclear. To gain more insight into these functions temperature sensitive mutants of the human EIF5A1 were characterized in the yeast Saccharomyces cerevisiae.
4
+ EIF5A is proposed to be an RNA binding protein. Thus, we used microarrays to identify special RNA subsets of up- and downregulation that are influenced by a limited eIF5A function in strains expressing a point mutated form of eIF5A.
5
+ Keywords: two sets of four biological replicates of wild-type and mutant strains
6
+ :title: Temperature sensitive eIF5A mutant shows accumulation of transcripts targeted to the Nonsense Mediated Decay pathway
7
+ :arrays:
8
+ GSM119755:
9
+ condition: wt
10
+ GSM119756:
11
+ condition: wt
12
+ GSM119757:
13
+ condition: wt
14
+ GSM119758:
15
+ condition: wt
16
+ GSM119751:
17
+ condition: V81G
18
+ GSM119752:
19
+ condition: V81G
20
+ GSM119753:
21
+ condition: V81G
22
+ GSM119754:
23
+ condition: V81G
24
+ :platform: GPL90
@@ -0,0 +1,107 @@
1
+ ---
2
+ :description: |-
3
+ Transcription profiles across the cell cycle of yox1 deleted yeast cells. BY2399 cells (yox1 delete cells isogenic with W303a) were arrested with alpha factor in YEPD media. After release from arrest cells were sampled every 5 min for 2 hr.
4
+ Keywords: cell cycle time course
5
+ :title: Cell cycle of yeast deleted for yox1
6
+ :arrays:
7
+ GSM120185:
8
+ time: yox1 90
9
+ GSM120174:
10
+ time: yox1 35
11
+ GSM120053:
12
+ time: yox1 85
13
+ GSM120042:
14
+ time: yox1 30
15
+ GSM120186:
16
+ time: yox1 95
17
+ GSM120175:
18
+ time: yox1 40
19
+ GSM120054:
20
+ time: yox1 90
21
+ GSM120043:
22
+ time: yox1 35
23
+ GSM120187:
24
+ time: yox1 100
25
+ GSM120176:
26
+ time: yox1 45
27
+ GSM120055:
28
+ time: yox1 95
29
+ GSM120044:
30
+ time: yox1 40
31
+ GSM120188:
32
+ time: yox1 105
33
+ GSM120177:
34
+ time: yox1 50
35
+ GSM120056:
36
+ time: yox1 100
37
+ GSM120045:
38
+ time: yox1 45
39
+ GSM120190:
40
+ time: yox1 115
41
+ GSM120189:
42
+ time: yox1 110
43
+ GSM120178:
44
+ time: yox1 55
45
+ GSM120167:
46
+ time: yox1 0
47
+ GSM120057:
48
+ time: yox1 105
49
+ GSM120046:
50
+ time: yox1 50
51
+ GSM120191:
52
+ time: yox1 120
53
+ GSM120180:
54
+ time: yox1 65
55
+ GSM120179:
56
+ time: yox1 60
57
+ GSM120168:
58
+ time: yox1 5
59
+ GSM120058:
60
+ time: yox1 110
61
+ GSM120047:
62
+ time: yox1 55
63
+ GSM120036:
64
+ time: yox1 0
65
+ GSM120181:
66
+ time: yox1 70
67
+ GSM120170:
68
+ time: yox1 15
69
+ GSM120169:
70
+ time: yox1 10
71
+ GSM120060:
72
+ time: yox1 120
73
+ GSM120059:
74
+ time: yox1 115
75
+ GSM120048:
76
+ time: yox1 60
77
+ GSM120037:
78
+ time: yox1 5
79
+ GSM120182:
80
+ time: yox1 75
81
+ GSM120171:
82
+ time: yox1 20
83
+ GSM120050:
84
+ time: yox1 70
85
+ GSM120049:
86
+ time: yox1 65
87
+ GSM120038:
88
+ time: yox1 10
89
+ GSM120183:
90
+ time: yox1 80
91
+ GSM120172:
92
+ time: yox1 25
93
+ GSM120051:
94
+ time: yox1 75
95
+ GSM120040:
96
+ time: yox1 20
97
+ GSM120039:
98
+ time: yox1 15
99
+ GSM120184:
100
+ time: yox1 85
101
+ GSM120173:
102
+ time: yox1 30
103
+ GSM120052:
104
+ time: yox1 80
105
+ GSM120041:
106
+ time: yox1 25
107
+ :platform: GPL1914
@@ -0,0 +1,13 @@
1
+ ---
2
+ :description: |-
3
+ This experiment was done to detect the transcriptomic defects in the gcr1 null mutant, relative to an isogenic wild type, in the immediate response to glucose.
4
+ Keywords: time course
5
+ :title: Response of gcr1 null mutant to glucose
6
+ :arrays:
7
+ GSM129828:
8
+ condition: Yeast_null mutant 60min
9
+ GSM129826:
10
+ condition: Yeast_null mutant 0min
11
+ GSM129827:
12
+ condition: Yeast_null mutant 20min
13
+ :platform: GPL884
@@ -0,0 +1,25 @@
1
+ ---
2
+ :description: |-
3
+ Gene expression analysis of a time course experiment of a synthetic must (nitrogen-rich) fermentation by a natural wine yeast.
4
+ Keywords: Time course
5
+ :title: Normal Fermentation
6
+ :arrays:
7
+ GSM113332:
8
+ condition: NF t2
9
+ GSM113333:
10
+ condition: NF t2
11
+ GSM113334:
12
+ condition: NF t3
13
+ GSM113335:
14
+ condition: NF t3
15
+ GSM113336:
16
+ condition: NF t3
17
+ GSM113325:
18
+ condition: NF t1
19
+ GSM113326:
20
+ condition: NF t1
21
+ GSM113327:
22
+ condition: NF t1
23
+ GSM113329:
24
+ condition: NF t2
25
+ :platform: GPL3763
@@ -0,0 +1,37 @@
1
+ ---
2
+ :description: |-
3
+ Gene expression analysis of a time course experiment of a synthetic must (nitrogen-poor) fermentation by a natural wine yeast.
4
+ Keywords: Time course
5
+ :title: Sluggish Fermentation
6
+ :arrays:
7
+ GSM113397:
8
+ condition: SFt8
9
+ GSM113386:
10
+ condition: SFt4
11
+ GSM113398:
12
+ condition: SFt8
13
+ GSM113387:
14
+ condition: SFt5
15
+ GSM113388:
16
+ condition: SFt5
17
+ GSM113390:
18
+ condition: SFt6
19
+ GSM113389:
20
+ condition: SFt5
21
+ GSM113391:
22
+ condition: SFt6
23
+ GSM113392:
24
+ condition: SFt6
25
+ GSM113393:
26
+ condition: SFt7
27
+ GSM113394:
28
+ condition: SFt7
29
+ GSM113383:
30
+ condition: SFt4
31
+ GSM113395:
32
+ condition: SFt7
33
+ GSM113384:
34
+ condition: SFt4
35
+ GSM113396:
36
+ condition: SFt8
37
+ :platform: GPL3763
@@ -0,0 +1,37 @@
1
+ ---
2
+ :description: |-
3
+ Gene expression analysis of a time course experiment of a synthetic must (nitrogen-poor) fermentation by a natural wine yeast, supplemented at 72 hours with 200 mg/l of nitrogen
4
+ Keywords: Time course
5
+ :title: Recovered Fermentation
6
+ :arrays:
7
+ GSM113407:
8
+ condition: SF t11
9
+ GSM113386:
10
+ condition: SF t4
11
+ GSM113387:
12
+ condition: SF t5
13
+ GSM113399:
14
+ condition: SF t9
15
+ GSM113388:
16
+ condition: SF t5
17
+ GSM113400:
18
+ condition: SF t9
19
+ GSM113389:
20
+ condition: SF t5
21
+ GSM113401:
22
+ condition: SF t9
23
+ GSM113402:
24
+ condition: SF t10
25
+ GSM113403:
26
+ condition: SF t10
27
+ GSM113404:
28
+ condition: SF t10
29
+ GSM113383:
30
+ condition: SF t4
31
+ GSM113405:
32
+ condition: SF t11
33
+ GSM113384:
34
+ condition: SF t4
35
+ GSM113406:
36
+ condition: SF t11
37
+ :platform: GPL3763
@@ -0,0 +1,187 @@
1
+ ---
2
+ :arrays:
3
+ GSM137882:
4
+ treatment: yap6
5
+ GSM137859:
6
+ treatment: tec1-sok2
7
+ GSM63865:
8
+ treatment: wt
9
+ GSM137838:
10
+ treatment: cup9
11
+ GSM137861:
12
+ treatment: tec1-skn7
13
+ GSM137883:
14
+ treatment: yap6
15
+ GSM63866:
16
+ treatment: 0mM cAMP
17
+ GSM137840:
18
+ treatment: cup9
19
+ GSM137839:
20
+ treatment: cup9
21
+ GSM63867:
22
+ treatment: 0mM cAMP
23
+ GSM137841:
24
+ treatment: cup9
25
+ GSM137862:
26
+ treatment: tec1-skn7
27
+ GSM137884:
28
+ treatment: cup9-yap6
29
+ GSM63868:
30
+ treatment: 0.5mM cAMP
31
+ GSM137842:
32
+ treatment: sfl1
33
+ GSM137863:
34
+ treatment: cup9-sfl1
35
+ GSM137885:
36
+ treatment: cup9-yap6
37
+ GSM63870:
38
+ treatment: 1mM cAMP
39
+ GSM137843:
40
+ treatment: sfl1
41
+ GSM137864:
42
+ treatment: cup9-sfl1
43
+ GSM137886:
44
+ treatment: cup9-yap6
45
+ GSM63871:
46
+ treatment: 2mM cAMP
47
+ GSM137823:
48
+ treatment: Wild-type yeast form
49
+ GSM137844:
50
+ treatment: sfl1
51
+ GSM137865:
52
+ treatment: cup9-sfl1
53
+ GSM137887:
54
+ treatment: sfl1-yap6
55
+ GSM63872:
56
+ treatment: mM cAMP
57
+ GSM137824:
58
+ treatment: Wild-type yeast form
59
+ GSM137845:
60
+ treatment: sok2
61
+ GSM137866:
62
+ treatment: cup9-sok2
63
+ GSM137890:
64
+ treatment: sok2-yap6
65
+ GSM137888:
66
+ treatment: sfl1-yap6
67
+ GSM137825:
68
+ treatment: Wild-type yeast form
69
+ GSM137846:
70
+ treatment: sok2
71
+ GSM137867:
72
+ treatment: cup9-sok2
73
+ GSM63873:
74
+ treatment: ira1
75
+ GSM137891:
76
+ treatment: sok2-yap6
77
+ GSM137889:
78
+ treatment: sfl1-yap6
79
+ GSM137870:
80
+ treatment: cup9-skn7
81
+ GSM137826:
82
+ treatment: Wild-type yeast form
83
+ GSM137847:
84
+ treatment: sok2
85
+ GSM137868:
86
+ treatment: cup9-sok2
87
+ GSM63874:
88
+ treatment: ira1
89
+ GSM137892:
90
+ treatment: sok2-yap6
91
+ GSM137871:
92
+ treatment: cup9-skn7
93
+ GSM137869:
94
+ treatment: cup9-skn7
95
+ GSM137848:
96
+ treatment: skn7
97
+ GSM63875:
98
+ treatment: ira1RA
99
+ GSM137827:
100
+ treatment: Wild-type yeast form
101
+ GSM137850:
102
+ treatment: skn7
103
+ GSM137872:
104
+ treatment: sfl1-sok2
105
+ GSM63876:
106
+ treatment: ira1RA
107
+ GSM137828:
108
+ treatment: Wild-type yeast form
109
+ GSM137849:
110
+ treatment: skn7
111
+ GSM63877:
112
+ treatment: ira2
113
+ GSM137830:
114
+ treatment: Wild-type filamentous form
115
+ GSM137829:
116
+ treatment: Wild-type filamentous form
117
+ GSM137851:
118
+ treatment: tec1-cup9
119
+ GSM137873:
120
+ treatment: sfl1-sok2
121
+ GSM63878:
122
+ treatment: ira2
123
+ GSM137831:
124
+ treatment: Wild-type filamentous form
125
+ GSM137852:
126
+ treatment: tec1-cup9
127
+ GSM137874:
128
+ treatment: sfl1-sok2
129
+ GSM63880:
130
+ treatment: ras2v19
131
+ GSM63879:
132
+ treatment: ras2v19
133
+ GSM137832:
134
+ treatment: tec1
135
+ GSM137853:
136
+ treatment: tec1-cup9
137
+ GSM137875:
138
+ treatment: sfl1-skn7
139
+ GSM63881:
140
+ treatment: ras2a22
141
+ GSM137833:
142
+ treatment: tec1
143
+ GSM137854:
144
+ treatment: tec1-sfl1
145
+ GSM137876:
146
+ treatment: sfl1-skn7
147
+ GSM63861:
148
+ treatment: wt
149
+ GSM63882:
150
+ treatment: ras2a22
151
+ GSM137834:
152
+ treatment: tec1
153
+ GSM137855:
154
+ treatment: tec1-sfl1
155
+ GSM137877:
156
+ treatment: sfl1-skn7
157
+ GSM137835:
158
+ treatment: tec1
159
+ GSM137856:
160
+ treatment: tec1-sfl1
161
+ GSM63862:
162
+ treatment: wt
163
+ GSM137880:
164
+ treatment: sok2-skn7
165
+ GSM137878:
166
+ treatment: sok2-skn7
167
+ GSM137836:
168
+ treatment: tec1
169
+ GSM137857:
170
+ treatment: tec1-sok2
171
+ GSM137881:
172
+ treatment: yap6
173
+ GSM137879:
174
+ treatment: sok2-skn7
175
+ GSM137837:
176
+ treatment: cup9
177
+ GSM137860:
178
+ treatment: tec1-skn7
179
+ GSM137858:
180
+ treatment: tec1-sok2
181
+ GSM63864:
182
+ treatment: wt
183
+ :description: |-
184
+ We construced combinations of genetic deletions to infer genetic interactions in genomic expression data.
185
+ Keywords: combinatorial genetic perturbations
186
+ :title: Expression data for filamentous-form yeast with genetic perturbations
187
+ :platform: GPL90
@@ -0,0 +1,29 @@
1
+ ---
2
+ :title: S. cerevisiae mutant with a constitutively activated Ras/cAMP pathway
3
+ :description: |-
4
+ Comparison of the transcriptomes of Saccharomyces cerevisiae wild type FY23 and a PDE2 deletion mutant DJ28.
5
+ Keywords = PDE2
6
+ Keywords = Ras/cAMP pathway
7
+ Keywords: other
8
+ :arrays:
9
+ GSM9174:
10
+ condition: DLJ
11
+ GSM9175:
12
+ condition: DLJ
13
+ GSM9142:
14
+ condition: DLJ
15
+ GSM9176:
16
+ condition: DLJ
17
+ GSM9177:
18
+ condition: DLJ
19
+ GSM9178:
20
+ condition: DLJ
21
+ GSM9179:
22
+ condition: DLJ
23
+ GSM9180:
24
+ condition: DLJ
25
+ GSM9181:
26
+ condition: DLJ
27
+ GSM9182:
28
+ condition: DLJ
29
+ :platform: GPL422