|
ID |
Name |
Source |
pValue |
FDR B&H |
FDR B&Y |
Bonferroni |
Genes from Input
|
Genes in Annotation
|
1
|
19695104-AF1-2
|
Human Breast Lin09 15genes
|
GeneSigDB
|
1.762E-9
|
9.886E-7
|
6.829E-6
|
9.886E-7
|
3
|
14
|
2
|
M5903
|
Genes up-regulated by activation of Notch signaling.
|
MSigDB H: Hallmark Gene Sets (v6.0)
|
2.399E-8
|
6.728E-6
|
4.648E-5
|
1.346E-5
|
3
|
32
|
3
|
19695104-AF2
|
Human Breast Lin09 128genes
|
GeneSigDB
|
2.528E-7
|
4.727E-5
|
3.265E-4
|
1.418E-4
|
3
|
69
|
4
|
19074895-Table3
|
Human Liver Sakai08 86genes
|
GeneSigDB
|
1.232E-4
|
1.417E-2
|
9.786E-2
|
6.913E-2
|
2
|
82
|
5
|
M9224
|
Selected genes up-regulated in peripheral blood monocytes (PBMC) of patients with hepatocellular carcinoma (HCC) compared to those with chronic hepatitis.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
1.263E-4
|
1.417E-2
|
9.786E-2
|
7.083E-2
|
2
|
83
|
6
|
M3401
|
Genes down-regulated in comparison of control microglia cells versus those 1 h after stimulation with IFNG [GeneID=3458].
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.236E-4
|
2.563E-2
|
1.770E-1
|
4.060E-1
|
2
|
199
|
7
|
M4730
|
Genes down-regulated in comparison of dendritic cells (DC) stimulated with R848 at 2 h versus DCs stimulatd with R848 for 8 h.
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.236E-4
|
2.563E-2
|
1.770E-1
|
4.060E-1
|
2
|
199
|
8
|
M3378
|
Genes up-regulated in comparison of Th1 cells versus induced regulatory T cell (Treg).
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
9
|
M3811
|
Genes up-regulated in comparison of dendritic cells (DC) stimulated with LPS (TLR4 agonist) at 8 h versus DC cells stimulated with poly(I:C) (TLR3 agonist) at 8 h.
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
10
|
M5901
|
Genes involved in the G2/M checkpoint, as in progression through the cell division cycle.
|
MSigDB H: Hallmark Gene Sets (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
11
|
M3441
|
Genes up-regulated in comparison of intrathymic T progenitor cells (ITTP) versus naive CD4 [GeneID=920] T cells from cord blood.
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
12
|
M3388
|
Genes up-regulated in comparison of Th17 cells versus natural regulatory T cell (Treg).
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
13
|
M4465
|
Genes down-regulated in comparison of neutrophils versus dendritic cells (DC).
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
14
|
M3157
|
Genes down-regulated in comparison of T follicular helper (Tfh) cells versus Th17 cells.
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
15
|
M4836
|
Genes up-regulated in comparison of CD8 T cells versus NK cells.
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
16
|
M3199
|
Genes down-regulated in comparison of naive B cell versus pre-germinal tonsil B cells.
|
MSigDB C7: Immunologic Signatures (v6.0)
|
7.309E-4
|
2.563E-2
|
1.770E-1
|
4.100E-1
|
2
|
200
|
17
|
19204204-SupplementaryTable7
|
Human Breast Parker09 306genes IntrinsicGenes HuShort
|
GeneSigDB
|
1.067E-3
|
3.521E-2
|
2.433E-1
|
5.986E-1
|
2
|
242
|
18
|
12890387-Table1
|
Human Leukemia Wang03 06genes
|
GeneSigDB
|
1.296E-3
|
4.039E-2
|
2.790E-1
|
7.271E-1
|
1
|
6
|
19
|
12098359-Table2
|
Mouse Lung not cancer Loke02 18genes NematodeInfection up
|
GeneSigDB
|
1.512E-3
|
4.219E-2
|
2.914E-1
|
8.482E-1
|
1
|
7
|
20
|
20203266-TableS1a
|
Human Leukemia Falini10 400genes Top400MLD
|
GeneSigDB
|
1.601E-3
|
4.219E-2
|
2.914E-1
|
8.981E-1
|
2
|
297
|
21
|
14695196-Table2
|
Human Colon Mariadason03 420genes
|
GeneSigDB
|
1.655E-3
|
4.219E-2
|
2.914E-1
|
9.282E-1
|
2
|
302
|
22
|
20103679-ST3-B
|
Human Breast Wood10 416genes
|
GeneSigDB
|
1.655E-3
|
4.219E-2
|
2.914E-1
|
9.282E-1
|
2
|
302
|
23
|
M2879
|
Selected genes down-regulated in response to the Ras inhibitor salirasib [PubChem=5469318] in a panel of cancer cell lines with constantly active HRAS [GeneID=3265].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
2.115E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
2
|
342
|
24
|
M9183
|
Pre-mitotic cell cycle regulators (CDC) identified in an shRNA screen of the ubiquitin pathway components.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
2.375E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
11
|
25
|
M2029
|
Genes down-regulated in NCI-H1299 cells (large cell neuroendocrine carcinoma) stably expressing SEMA3B [GeneID=7869].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
3.024E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
2
|
410
|
26
|
17895889-Table1b
|
Human Leukemia Hamamura07 17genes
|
GeneSigDB
|
3.453E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
16
|
27
|
19096012-TableS2
|
Human Viral Chetaille09 501genes
|
GeneSigDB
|
3.458E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
2
|
439
|
28
|
M1704
|
Genes up-regulated in mammary glands from the CITED1 [GeneID=4435] knockout mice: homozygotic vs wild type (WT) animals.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
3.669E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
17
|
29
|
16705683-table3
|
Mouse StemCell Fujino06 22genes
|
GeneSigDB
|
4.100E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
19
|
30
|
M15209
|
Up-regulated genes from top 82 genes out of the 324-gene signature identified in the pre-neoplastic tissue adjacent to the mammary tumors induced by transgenic expression of ERBB2 [GeneID=2064].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
4.315E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
20
|
31
|
19749795-SuppTable1
|
Human Leukemia Ueno09 30genes HighestUpRegulation3Days
|
GeneSigDB
|
4.746E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
22
|
32
|
11573962-Table3
|
Human Viral Sun01 27genes Cell Cycle-Related
|
GeneSigDB
|
4.746E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
22
|
33
|
M1116
|
Genes up-regulated in MEF cells (embryonic fibroblasts) after knockout of PML [GeneID=5371] and whose promoters were bound by MYC [GeneID=4609].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
4.961E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
23
|
34
|
M2104
|
Genes repressed in SKBR3 cells (breast cancer) by 25-hydroxyvitamin D3 [PubChem=1593].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
5.391E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
25
|
35
|
M10748
|
Genes up-regulated in bulk samples from early primary breast tumors expressing ESR1 [GeneID=2099] vs the ESR1 negative samples.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
5.822E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
27
|
36
|
M2483
|
Genes with known mitosis function that were down-regulated in MEF cells (embryonic fibroblast) upon knockout of LIN9 [GeneID=286826].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
6.037E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
28
|
37
|
16140920-Table1b
|
Human Brain Natsume05 54genes
|
GeneSigDB
|
6.252E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
29
|
38
|
M13314
|
Genes down-regulated in follicular thyroid carcinoma (FTC) samples that bear PAX8-PPARG [GeneID=7849;5468] fusion protein.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
7.327E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
34
|
39
|
M13585
|
Genes up-regulated in EVSA-T cells (breast cancer) treated with 5 micromolar THC (delta-9-tetrahydrocannabinol) [PubChem=6610319] for 24 h.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
7.327E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
34
|
40
|
M1648
|
Genes most consistently regulated at 4 h by all six genotoxins tested: cisplatin, methyl methanesulfonate, mitomycin C, taxol, hydroxyurea and etoposide [PubChem=2767;4156;5746;4666;3657;36462].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
7.541E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
35
|
41
|
15120960-Table2
|
Mouse Lymphoma Hu04 39genes
|
GeneSigDB
|
7.756E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
36
|
42
|
M1187
|
Genes down-regulated in MCF7 cells (breast cancer, normal TP53 [GeneID=7157]) undergoing mitotic arrest and apoptosis after treatment with 100 nM docetaxel [PubChem=148124].
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
8.186E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
38
|
43
|
17906199-SuppTable1
|
Human Lung Hsu07 45genes
|
GeneSigDB
|
8.186E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
38
|
44
|
12890387-Table2
|
Human Leukemia Wang03 43genes
|
GeneSigDB
|
8.400E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
39
|
45
|
M16093
|
Cluster d7: genes progressively down-regulated in WS1 cells (fibroblast) through 18 h after irradiation with high dose UV-C.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
8.615E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
40
|
46
|
M5895
|
Genes up-regulated by activation of WNT signaling through accumulation of beta catenin CTNNB1 [GeneID=1499].
|
MSigDB H: Hallmark Gene Sets (v6.0)
|
9.044E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
42
|
47
|
M3782
|
Genes down-regulated in ST1 cells (adult T-cell leukemia, ATL) after knockdown of FRA2 [GeneID=2355] by RNAi.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
9.259E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
43
|
48
|
17504995-TableS3
|
Human Lung Larsen07 54genes
|
GeneSigDB
|
9.259E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
43
|
49
|
M3464
|
Down-regulated genes from the optimal set of 100 markers discriminating ER(-) breast cancer tumors by BRCA1 [GeneID=672] mutation status.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
9.259E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
43
|
50
|
M4902
|
Top down-regulated genes distinguishing between follicular thyroid carcinoma (FTC) samples by the presence or absence of the PAX8-PPARG [GeneID=7849;5468] fusion protein.
|
MSigDB C2: CGP Curated Gene Sets (v6.0)
|
9.688E-3
|
4.945E-2
|
3.416E-1
|
1.000E0
|
1
|
45
|