Module 556

Jump to: General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display

General Properties
Below we list the number of gene sets from which the module was composed was originally composed, and the number of genes and experiments that it contains. Clicking on the number of genes will display a detailed list of all the genes in the module. Clicking on the number of experiments will display a detailed list of all the experiments in the module.
Num gene sets:	2
Num genes:	27 (see 3 additional genes for this module)
Num experiments:	118 (51 induced, 67 repressed)

Jump to: General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display

Gene sets
Below we list the gene sets from which the module was originally composed. Clicking on a gene set will display all the genes associated with that gene set. Also listed are all the other modules in which the gene set participates.
Fluorene_degradation	556
Staunton01 23	556

Jump to: General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display

Enriched clinical annotations
For each of the clinical annotations, we tested whether it was enriched in the set of experiments in which the module is significantly induced (or repressed). Below we list all such annotations that were enriched in this module with an FDR corrected p-value of 0.05 ('P-value' column), along with the number ('Hits' column) of induced (or repressed) experiments in which they appear. We also show the fraction of experiments with the given annotation that are included in this module ('Hits (%)' column). Rows that correspond to annotations that were enriched in the induced experiments of the module have a red background, while rows corresponding to annotations enriched in the repressed experiments have a green background. For each annotation, we also list the other modules in which it was enriched.
Clinical annotation	P-value	Hits	Hits(%)	Modules
Normal lung	1.87e-13	12	23.529	1 3 5 7 8 10 16 17 18 21 31 36 40 41 52 53 54 56 68 72 89 90 94 96 98 102 104 105 112 125 126 127 128 129 130 139 148 153 154 158 165 167 168 170 176 180 181 189 198 203 204 210 211 219 222 230 235 242 244 252 259 297 298 302 320 322 326 327 342 344 357 374 376 379 382 384 390 397 401 403 404 410 421 422 426 428 438 450 451 461 462 469 470 471 528 533 538 543 552 556 557 571 573
Liver non-tumor	2.40e-08	13	25.490	1 2 5 6 8 9 10 11 12 15 18 19 23 24 26 27 33 34 38 40 41 43 44 45 46 47 48 49 53 54 55 57 58 60 63 64 66 73 75 76 78 79 84 85 88 92 93 94 95 96 98 99 100 101 106 107 108 109 112 117 118 121 122 123 124 125 128 129 130 131 132 134 135 137 140 146 154 158 162 163 164 165 170 171 172 176 180 184 185 190 191 193 197 198 199 205 207 208 209 212 213 220 221 223 225 227 234 235 236 238 239 241 244 247 248 249 252 253 257 259 262 263 265 276 283 286 287 288 289 292 294 295 297 301 302 305 306 309 310 315 319 320 321 324 327 335 337 342 343 345 349 353 354 357 364 370 372 373 375 385 397 401 403 404 405 410 415 417 422 423 424 426 431 434 436 437 440 445 452 456 458 461 468 469 470 474 478 479 481 484 485 486 494 495 496 505 506 521 523 528 529 536 544 545 546 556 566
Liver cell line	2.44e-07	6	8.955	1 3 9 10 17 18 19 23 24 27 32 38 40 43 44 45 46 48 49 52 54 57 58 60 63 64 72 73 75 76 78 79 93 95 96 98 99 101 106 107 108 109 112 117 118 119 121 123 124 125 126 128 129 130 131 132 135 139 158 163 164 165 167 169 170 171 172 176 177 180 184 185 198 199 205 208 209 212 213 221 223 235 238 244 246 247 249 252 258 259 263 265 283 286 292 294 295 301 302 305 309 310 320 327 337 342 343 345 349 353 373 388 395 397 401 403 410 415 416 418 424 426 430 436 438 440 443 451 454 456 457 458 461 462 467 477 478 479 496 505 529 536 556 572
SQCLC	1.31e-06	9	13.432	2 5 6 7 10 11 12 19 23 24 33 36 38 41 45 46 51 55 58 60 64 66 68 75 76 88 92 94 100 101 104 107 108 109 112 121 122 129 130 132 137 139 142 148 153 154 165 172 176 180 181 209 213 223 230 234 242 290 297 298 310 324 326 327 342 357 373 374 379 382 401 404 410 426 428 431 435 461 462 467 486 487 556 564 569 577
Liver tissue	9.25e-06	16	31.372	1 2 3 5 6 8 9 10 11 12 15 16 17 18 19 23 24 26 27 33 34 38 40 41 43 44 45 46 47 48 49 52 53 54 55 57 58 60 63 64 66 67 73 75 76 78 79 84 85 88 92 93 94 95 96 98 99 100 101 106 107 108 109 112 117 118 121 122 123 125 128 129 130 131 132 134 135 137 139 140 143 146 154 158 162 163 164 165 170 171 172 176 180 184 185 186 190 191 193 197 198 199 205 207 208 209 212 213 220 221 223 227 234 235 236 239 247 248 249 251 252 253 257 259 262 263 265 286 287 288 289 292 293 294 295 297 305 306 309 310 315 320 321 324 327 335 337 342 343 345 349 353 354 357 364 367 370 372 373 375 385 386 397 401 404 405 406 410 415 417 422 423 424 426 432 434 436 437 440 445 452 458 461 468 469 474 477 478 479 481 484 485 486 495 496 505 506 507 510 514 515 523 528 529 530 536 544 545 546 553 556 564 566
Liver tissue or cell line	1.83e-05	16	31.372	1 2 3 5 6 8 9 10 11 12 15 16 17 18 19 23 24 27 33 34 38 40 41 43 44 45 46 47 48 49 52 53 54 55 57 58 60 63 64 66 67 72 73 75 76 78 79 84 85 88 92 93 94 95 96 98 99 100 101 106 107 108 109 112 117 118 121 122 123 125 128 129 130 131 132 134 135 137 139 140 146 154 158 162 163 164 165 170 171 172 176 180 184 185 186 190 191 193 197 198 199 205 207 208 209 212 213 220 221 223 227 234 235 236 239 247 248 249 250 251 252 253 257 259 262 263 265 283 286 287 288 289 292 293 294 295 297 305 306 309 310 315 320 321 324 327 335 337 342 343 345 349 353 354 357 364 367 370 372 373 375 385 386 397 401 402 404 405 406 410 415 417 422 423 424 426 432 434 436 437 440 445 452 454 457 458 461 468 469 474 477 478 479 481 484 486 495 496 505 506 507 510 514 515 523 528 529 530 536 544 545 546 553 556 564 566
MLL sub class	3.43e-05	6	8.955	1 2 5 6 11 12 19 27 33 38 46 47 51 55 63 64 65 66 75 76 79 80 85 88 92 94 99 100 112 113 117 120 122 128 129 137 146 170 174 199 216 220 247 248 250 259 265 267 287 289 316 324 328 340 347 416 424 433 437 456 503 556 576
Activated B like	8.59e-05	6	11.764	2 5 6 16 27 33 37 38 44 45 46 52 53 55 60 63 64 69 75 76 79 84 85 88 97 108 117 118 119 128 134 136 145 169 170 171 172 174 179 182 188 193 199 204 208 223 238 241 255 258 259 261 263 288 289 291 292 300 301 311 317 345 348 358 361 367 375 378 399 436 449 459 502 513 522 525 532 556 562
Normal tissue	9.06e-05	14	27.450	1 2 3 7 8 10 13 15 16 17 18 20 21 22 25 28 29 31 32 41 42 47 52 53 54 56 58 62 68 72 74 77 78 81 83 89 90 91 96 98 102 104 105 111 112 113 114 115 116 118 125 126 127 130 146 149 150 151 152 157 158 159 167 168 176 181 183 184 189 190 198 201 202 203 204 213 215 221 222 242 244 252 273 298 299 302 305 309 315 320 329 330 344 355 363 373 376 379 387 397 401 403 410 416 419 421 422 428 429 434 438 447 450 469 471 474 489 494 512 519 521 523 524 538 552 556 557 571
Lung	0.00010	19	37.254	1 2 5 6 7 8 10 11 12 17 19 21 23 24 33 34 36 38 40 41 44 45 46 52 55 56 58 60 66 68 72 75 76 84 88 89 90 92 93 94 100 104 105 107 108 109 112 113 118 119 121 122 127 129 130 131 137 139 142 148 153 154 164 165 167 168 172 176 180 181 189 190 191 194 203 204 209 210 213 220 222 223 230 234 235 242 262 263 275 290 297 298 310 311 322 324 326 327 342 357 373 374 376 379 382 384 385 390 391 392 401 404 416 421 426 428 431 435 438 450 461 462 464 465 467 468 469 471 473 479 486 487 513 514 520 533 538 540 542 543 549 551 552 556 564 573
Bone marrow	0.00026	6	8.955	1 2 5 6 11 12 19 23 24 27 33 38 45 46 47 51 55 57 60 63 64 65 66 75 76 79 80 84 85 88 89 90 92 94 96 99 100 117 121 122 124 127 128 129 137 146 168 169 170 174 176 189 199 203 204 216 220 222 241 247 248 250 259 267 287 289 291 315 316 324 328 340 341 344 347 372 403 411 416 424 426 433 434 440 456 534 549 556
Colon metastasis to liver	0.00036	3	4.477	10 40 43 58 78 93 101 106 107 109 130 131 132 135 139 140 164 167 172 184 186 205 209 212 221 227 235 247 249 286 294 295 297 305 306 310 343 349 354 357 370 373 401 415 422 438 440 452 458 464 479 493 495 505 506 526 530 556

Jump to: General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display

Enriched GO annotations
For each GO annotation, we tested whether it was enriched in the set of genes of the module. Below we list all such annotations that were enriched in this module with an FDR corrected p-value of 0.05 ('P-value' column), along with the number ('Hits' column) of genes in which they appear. We also show the fraction of genes with the given GO annotation that are included in this module ('Hits (%)' column).
GO annotation	P-value	Hits	Hits(%)
sugar binding	9.44e-05	4	14.814

Jump to: General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display

Visual display
Below is a visual display of the module. Shown are those arrays in which the module's genes significantly change, and the direction of change (induction/repression) in each array is indicated (middle, labeled 'Module changes'; red/green row). The arrays that correspond to the significant clinical attributes are also shown (top; brown rows). The gene sets that compose the module are also shown (left) along with an indication of the membership of the module genes in these gene sets.
You can also view the images within GeneXPress by loading the module gxp file file.
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