Spreadsheet: 49d728b0-18ec-46fe-ac2a-84ea4bcc343d
Sheet: Sheet1

Table S5: Details of pathway signatures analyzed in this study | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4 | Unnamed: 5
No. | Signature name | Paired or single | Description | First author or source | PMID
1 | HDACI_COLON_BUT | Paired | Upregulated by butyrate at any timepoint up to 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
2 | HDACI_COLON_BUT12HRS | Paired | Upregulated by butyrate at 12 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
3 | HDACI_COLON_BUT16HRS | Paired | Upregulated by butyrate at 16 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
4 | HDACI_COLON_BUT24HRS | Paired | Upregulated by butyrate at 24 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
5 | HDACI_COLON_BUT2HRS | Paired | Upregulated by butyrate at 2 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
6 | HDACI_COLON_BUT30MIN_DN | Single-sided | Downregulated by butyrate at 30 min in SW260 colon carcinoma cells | Mariadason et al. | 10969808
7 | HDACI_COLON_BUT48HRS | Paired | Upregulated by butyrate at 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
8 | HDACI_COLON_CUR | Paired | Upregulated by curcumin at any timepoint up to 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
9 | HDACI_COLON_CUR12HRS | Paired | Upregulated by curcumin at 12 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
10 | HDACI_COLON_CUR16HRS_DN | Single-sided | Downregulated by curcumin at 16 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
11 | HDACI_COLON_CUR24HRS | Paired | Upregulated by curcumin at 24 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
12 | HDACI_COLON_CUR2HRS | Paired | Upregulated by curcumin at 2 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
13 | [NAME] | Paired | Upregulated by curcumin at 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
14 | HDACI_COLON_CURSUL | Paired | Upregulated by both curcumin and sulindac at any timepoint up to 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
15 | HDACI_COLON_SUL | Paired | Upregulated by sulindac at any timepoint up to 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
16 | HDACI_COLON_SUL12HRS | Paired | Upregulated by sulindac at 12 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
17 | HDACI_COLON_SUL16HRS | Paired | Upregulated by sulindac at 16 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
18 | HDACI_COLON_SUL24HRS | Paired | Upregulated by sulindac at 24 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
19 | HDACI_COLON_SUL2HRS | Paired | Upregulated by sulindac at 2 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
20 | HDACI_COLON_SUL30MIN_DN | Single-sided | Downregulated by sulindac at 30 min in SW260 colon carcinoma cells | Mariadason et al. | 10969808
21 | HDACI_COLON_SUL48HRS | Paired | Upregulated by sulindac at 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
22 | HDACI_COLON_TSA | Paired | Upregulated by TSA at any timepoint up to 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
23 | HDACI_COLON_TSA12HRS | Paired | Upregulated by TSA at 12 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
24 | HDACI_COLON_TSA24HRS_DN | Single-sided | Downregulated by TSA at 24 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
25 | HDACI_COLON_TSA2HRS | Paired | Upregulated by TSA at 2 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
26 | HDACI_COLON_TSA30MIN_DN | Single-sided | Downregulated by TSA at 30 min in SW260 colon carcinoma cells | Mariadason et al. | 10969808
27 | HDACI_COLON_TSA48HRS | Paired | Upregulated by TSA at 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
28 | HDACI_COLON_TSABUT | Paired | Upregulated by both butyrate and TSA at any timepoint up to 48 hrs in SW260 colon carcinoma cells | Mariadason et al. | 10969808
29 | S1_HDAC_INH | Paired | HDAC inihibitors signature | Lamb et. [NAME] | 17008526
30 | S2_ESTRADIOL | Paired | [NAME] signature | Lamb et. [NAME] | 17008526
31 | S3_PHENOTHIAZINE0 | Paired | Phenothiazine signature | Lamb et. [NAME] | 17008526
32 | S4_PHENOTHIAZINE1 | Paired | Phenothiazine signature | Lamb et. [NAME] | 17008526
33 | S5_PHENOTHIAZINE2 | Paired | Phenothiazine signature | Lamb et. [NAME] | 17008526
34 | S6_PHENOTHIAZINE3 | Paired | Phenothiazine signature | Lamb et. [NAME] | 17008526
35 | S7_GEDUNIN | Paired | Gedunin signature | Lamb et. [NAME] | 17008526
36 | S8_DIET_OBESITY | Paired | Diet-induced obesity | Lamb et. [NAME] | 17008526
37 | S9_ALZHEIMER_HATA | Paired | Alzheimer signature | Lamb et. [NAME] | 17008526
38 | S10_ALZHEIMER_RICCIARELLI | Paired | Alzheimer signature | Lamb et. [NAME] | 17008526
39 | S11_ALL_DEXAMETHASONE_RESPONSE | Paired | Dexamethasone response | Lamb et. [NAME] | 17008526
40 | S12_CELASTROL | Paired | Celastrol signature | Lamb et. [NAME] | 17008526
41 | 5FU_RESIST_GASTRIC | Paired | Upregulated in gastric cancer cell lines reistant to 5-fluorouracil, compared to parent chemosensitive lines | [NAME]. | 14734480
42 | CIS_RESIST_GASTRIC | Paired | Upregulated in gastric cancer cell lines reistant to cisplatin, compared to parent chemosensitive lines | [NAME]. | 14734480
43 | [NAME] | Paired | Upregulated in gastric cancer cell lines reistant to doxorubicin, compared to parent chemosensitive lines | [NAME]. | 14734480
44 | REFRACTORY_GASTRIC | Paired | Upregulated in samples of gastric cancer refractory to 5-FU/cisplatin treatment, compared to chemosensitive controls | [NAME]. | 15033468
45 | DNMT1_KO | Paired | Upregulated following conditional knock-out of DNMT1 in MEFs | Jackson-Grusby et [NAME]. | 11137995
46 | HEMATOP_STEM_ALL | Paired | Up-regulated in populations of human hematopoietic stem cells (CD34+/CD38-/Lin-) from bone marrow, umbilical cord blood, and peripheral blood stem-progenitor cells, compared to the stem cell-depleted population (CD34+/[CD38/Lin++]) | Georgantas et al. | 15231652
47 | STEMCELL_COMMON | Paired | Enriched in mouse embryonic, neural and hematopoietic stem cells, compared to differentiated brain and bone marrow cells | [NAME] et al. | 12228720
48 | STEMCELL_EMBRYONIC | Paired | Enriched in mouse embryonic stem cells, compared to differentiated brain and bone marrow cells | [NAME] et al. | 12228720
49 | STEMCELL_HEMATOPOIETIC | Paired | Enriched in mouse hematopoietic stem cells, compared to differentiated brain and bone marrow cells | [NAME] et al. | 12228720
50 | STEMCELL_NEURAL | Paired | Enriched in mouse neural stem cells, compared to differentiated brain and bone marrow cells | [NAME] et al. | 12228720
51 | BECKER_ESTROGEN_RESPONSIVE_SUBSET_2 | Single-sided | Estrogen-responsive genes which are downregulated in MaCa 3366/TAM compared to MaCa 3366 (fold change > 2) | Becker et al. | 15657362
52 | BREAST_CANCER_ESTROGEN_SIGNALING | Single-sided | Genes preferentially expressed in breast cancers, especially those involved in estrogen-receptor-dependent signal transduction. | http://www.superarray.com/gene_array_product/HTML/HS-020.html | N.A.
53 | SCHUMACHER_MYC | Paired | Genes up-regulated by MYC in P493-6 (B-cell) | Schuhmacher et [NAME]. | 11139609
54 | ZELLER_MYC | Paired | Genes up-regulated by MYC in >3 papers. | [NAME]. | 14519204
55 | MENSSEN_MYC | Paired | Genes up-regulated by MYC in HUVEC (umbilical vein endothelial cell) | Menssen et al. | 11983916
56 | LEE_MYC | Paired | Genes up-regulated in hepatoma tissue of Myc transgenic mice | [NAME]. | 15565109
57 | LEE_MYC_E2F1 | Paired | Genes up-regulated in hepatoma tissue of Myc+E2f1 transgenic mice | [NAME]. | 15565109
58 | LEE_MYC_TGFA | Paired | Genes up-regulated in hepatoma tissue of Myc+Tgfa transgenic mice | [NAME]. | 15565109
59 | LEE_E2F1 | Paired | Genes up-regulated in hepatoma tissue of E2f1 transgenic mice | [NAME]. | 15565109
60 | E2F1_DNA | Paired | DNA replication genes upregulated by E2F1 induction | Kalma et al. | 11313881
61 | IGLESIAS_E2FMINUS | Paired | Genes that increase in the absence of E2F1 and E2F2 | [NAME]. | 15146237
62 | STANELLE_E2F1 | Paired | Genes up-regulated by E2F1 in Saos2 (osteosarcoma) | [NAME]. | 11937641
63 | BECKER_TAMOXIFEN_RESISTANT | Paired | Genes that are reproducibly up-regulated in untreated or permanently tamoxifen-treated MaCa 3366/TAM (a tamoxifen-resistant, patient-derived mammary carcinoma xenograft) compared with untreated MaCa 3366 (a tamoxifen-sensitive, patient-derived mammary car | Becker et al. | 15657362
64 | BILD_BCAT | Paired | Upregulated by infection with adenovirus expressing activated b-catenin | [NAME]. | 16273092
65 | BILD_E2F3 | Paired | Upregulated by infection with adenovirus expressing human E2F3 | [NAME]. | 16273092
66 | BILD_MYC | Paired | Upregulated by infection with adenovirus expressing human c-Myc | [NAME]. | 16273092
67 | BILD_RAS | Paired | Upregulated by infection with adenovirus expressing activated H-Ras | [NAME]. | 16273092
68 | BILD_SRC | Paired | Upregulated by infection with adenovirus expressing human c-Src | [NAME]. | 16273092
69 | HINATA_NFKB | Paired | Genes upregulated by NF-kappa B | Hinata et al. | 12673201
70 | TNFA_NFKB_DEP | Paired | Up-regulated at any timepoint following TNFa treatment, only with functional NFkB | [NAME]. | 15722553
71 | TNFALPHA_30MIN | Paired | Upregulated 30min after TNF-alpha treatment of HeLa cells | [NAME] et [NAME]. | 12673210
72 | [NAME] | Paired | Upregulated 4hrs after TNF-alpha treatment of HeLa cells | [NAME] et [NAME]. | 12673210
73 | TNFALPHA_ADIP | Paired | Upregulated in mature, differentiated adipocytes following treatment with TNFalpha | [NAME]. | 12732648
74 | TNFALPHA_ALL | Paired | Upregulated at any timepoint after TNF-alpha treatment of HeLa cells | [NAME] et [NAME]. | 12673210
75 | TNFALPHA_TGZ_ADIP | Paired | Upregulated in mature, differentiated adipocytes following simultaneous treatment with troglitazone and TNFalpha | [NAME]. | 12732648
76 | KENNY_WNT | Paired | Genes up-regulated by Wnt in HC11 (mammary epithelial cells) | [NAME]. | 15642117
77 | LIN_WNT | Paired | Genes up-regulated by APC in [NAME] (colon cancer) | [NAME]. | 11522623
78 | WILLERT_WNT_NCCIT_ALL | Paired | Genes up-regulated by Wnt-3A in NCCIT (teratocarcinoma) | Willert et [NAME]. | 12095419
79 | KANNAN_P53 | Paired | Target genes up regulated by p53 | Kannan et al. | 11402317
80 | P21_P53_ANY_DN | Single-sided | Down-regulated at any timepoint (4-24 hrs) following ectopic expression of p21 (CDKN1A) in OvCa cells, p53-dependent | [NAME] et al. | 12138103
81 | P21_P53_EARLY_DN | Single-sided | Down-regulated at early timepoints (4-8 hrs) following ectopic expression of p21 (CDKN1A) in OvCa cells, p53-dependent | [NAME] et al. | 12138103
82 | P21_P53_LATE_DN | Single-sided | Down-regulated at late timepoints (20-24 hrs) following ectopic expression of p21 (CDKN1A) in OvCa cells, p53-dependent | [NAME] et al. | 12138103
83 | P21_P53_MIDDLE_DN | Single-sided | Down-regulated at intermediate timepoints (12-16 hrs) following ectopic expression of p21 (CDKN1A) in OvCa cells, p53-dependent | [NAME] et al. | 12138103
84 | P53_BRCA1 | Paired | Upregulated by expression of p53 in p53-null, [NAME]-null MEFs; most genes are further upregulated by simultaneous expression of BRCA1 | [NAME]. | 12802282
85 | STRESS_P53_SPECIFIC | Paired | Genes discriminating p53 status 4 hours after DNA-damaging treatments (more strongly up-regulated in p53+/+ [NAME] cells than p53-/- NH32 cells) | Amundson et al. | 15824734
86 | ADIPOCYTE_PPARG | Paired | [NAME] genes induced by both PPARgamma and rosiglitazone | [NAME]. | 11981038
87 | FRASOR_ER | Paired | Selective estrogen receptor modulators upregulated signature | Frasor et al. | 14973112
88 | STOSSI_ER | Paired | Genes up-regulated by estradiol through ERalpha and ERbeta in U2OS cells | [NAME] et al. | 15033914
89 | BRCA1_MES | Paired | Genes with reduced expression in mouse embryonic stem cells with a targeted deletion of BRCA1, whose expression was rescued by ectopic expression of a BRCA1 transgene | [NAME] et [NAME]. | 11384963
90 | BRCA1_OVEREXP | Paired | Upregulated by induction of exogenous BRCA1 in EcR-293 cells | Welcsh et al. | 12032322
91 | BRCA1_OVEREXP_PROSTATE | Paired | Up-regulated with stable, ectopic overexpression of BRCA1 in DU-145 human prostate cancer cell lines, compared to neo-only controls | Bae et al. | 15520196
92 | BRCA1_SW480 | Paired | Up-regulated by infection of human colon adenocarcinoma cells ([NAME]) with Ad-BRCA1, versus Ad-LacZ control | MacLachlan et al. | 10644742
93 | BRCA1KO_MEF_DN | Single-sided | Down-regulated in mouse embryonic fibroblasts following targeted deletion of [NAME] (exon 11) compared to wild-type MEFs | Bae et al. | 15520196
94 | BRCA_BRCA1_POS | Single-sided | Genes whose expression is consistently positively correlated with brca1 germline status in breast cancer - higher expression is associated with sporadic tumors | [NAME]. | 11823860
95 | BRCA_BRCA1_NEG | Single-sided | Genes whose expression is consistently negatively correlated with brca1 germline status in breast cancer - higher expression is associated with BRCA1 tumors | [NAME]. | 11823860
96 | BRCA_PROGNOSIS_POS | Single-sided | Genes whose expression is consistently positively correlated with breast cancer outcomes - higher expression is associated with good prognosis | [NAME]. | 11823860
97 | BRCA_PROGNOSIS_NEG | Single-sided | Genes whose expression is consistently negatively correlated with breast cancer outcomes - higher expression is associated with metastasis and poor prognosis | [NAME]. | 11823860
98 | WELCSH_BRCA | Paired | Genes upregulated by BRCA1 | Welcsh et al. | 12032322
99 | TFF2_KO | Paired | Up-regulated in pyloric atrium tissue from Trefoil Factor 2 (Tff2) knockout mice, compared to wild-type controls | [NAME]. | 16121031
100 | 5FU_RESIST_limma_p0.01 | Paired | 5FU resistance in gastric cancer cell lines (p=0.01) | Unpublished | Unpublished
101 | CIS_RESIST_limma_p0.01 | Paired | [NAME] resistance in gastric cancer cell lines (p=0.01) | Unpublished | Unpublished
102 | OXA_RESIST_limma_p0.01 | Paired | [NAME] resistance in gastric cancer cell lines (p=0.01) | Unpublished | Unpublished
103 | 5FU_RESIST_limma_p0.05 | Paired | 5FU resistance in gastric cancer cell lines (p=0.05) | Unpublished | Unpublished
104 | CIS_RESIST_limma_p0.05 | Paired | [NAME] resistance in gastric cancer cell lines (p=0.05) | Unpublished | Unpublished
105 | OXA_RESIST_limma_p0.05 | Paired | [NAME] resistance in gastric cancer cell lines (p=0.05) | Unpublished | Unpublished
106 | DZNep_Resistance_p0.05 | Paired | [NAME] resistance in gastric cancer cell lines (p=0.05) | Unpublished | Unpublished
107 | DZNep_Resistance_p0.01 | Paired | [NAME] resistance in gastric cancer cell lines (p=0.01) | Unpublished | Unpublished
108 | ASSOU_HUMAN_EMBRYONIC_STEM_CELL | Paired | Human embryonic stem cell signature | Assou et al. | 17204602
109 | ASSOU_HESC_SPECIFIC | Single-sided | Human embryonic stem cell signature | Assou et al. | 17204602
110 | IFNALPHA_HCC | Paired | Upregulated by interferon alpha treatment in Hep3B hepatocellular carcinoma cells | [NAME] | 11910354
111 | IFNALPHA_NL_HCC | Paired | Upregulated by interferon alpha treatment in both normal primary hepatocytes and Hep3B hepatocellular carcinoma cells | [NAME] | 11910354
112 | IFNALPHA_NL | Paired | Upregulated by interferon alpha treatment in normal primary hepatocytes | [NAME] | 11910354
113 | [NAME] | Paired | Up-regulated in fibroblasts at 6 hours following treatment with interferon-alpha | Browne et al. | 11711622
114 | IFNA_UV-CMV_COMMON_HCMV_6HRS | Paired | Up-regulated in fibroblasts at 6 hours following either infection with UV-inactivated CMV or interferon-alpha | Browne et al. | 11711622
115 | IFN_ALL | Paired | Upregulated 2-fold in HT1080 cells 6 hours following treatment with interferons alpha, beta and gamma | [NAME] et [NAME]. | 9861020
116 | IFN_ALPHA | Paired | Upregulated 2-fold in HT1080 cells 6 hours following treatment with interferon alpha | [NAME] et [NAME]. | 9861020
117 | IFN_ANY | Paired | Upregulated 2-fold in HT1080 cells 6 hours following treatment with any of interferons alpha, beta and gamma | [NAME] et [NAME]. | 9861020
118 | IFN_BETA_GLIOMA | Paired | Up-regulated in human glioma cells (T98) at 48 hours following treatment with interferon-beta | Natsume et al. | 16140920
119 | IFN_BETA | Paired | Upregulated 2-fold in HT1080 cells 6 hours following treatment with interferon beta | [NAME] et [NAME]. | 9861020
120 | IFN_GAMMA | Paired | Upregulated 2-fold in HT1080 cells 6 hours following treatment with interferon gamma | [NAME] et [NAME]. | 9861020
121 | DER_IFNA | Paired | Genes up-regulated by interferon-alpha in HT1080 (fibrosarcoma) | [NAME] et [NAME]. | 9861020
122 | DER_IFNB | Paired | Genes up-regulated by interferon-beta in HT1080 (fibrosarcoma) | [NAME] et [NAME]. | 9861020
123 | DER_IFNG | Paired | Genes up-regulated by interferon-gamma in HT1080 (fibrosarcoma) | [NAME] et [NAME]. | 9861020
124 | RADAEVA_IFNA | Paired | Genes up-regulated by interferon-alpha in primary [NAME] | [NAME] | 11910354
125 | SANA_IFNG_ENDOTHELIAL | Paired | Genes up-regulated by interferon-gamma in colon,derm,iliac,aortic,lung endothelial cells | [NAME] et al. | 15749026
126 | NEMETH_TNF | Paired | Genes induced after 3 h in LPS-stimulated RAW 2647 macrophages | [NAME] et al. | 12766259
127 | [NAME] | Paired | Genes up-regulated by TNFA in Hc cells (normal hepatocyte) | Osawa et al. | 12682234
128 | SANA_TNFA_ENDOTHELIAL | Paired | Genes up-regulated by TNFA in colon,derm,iliac,aortic,lung endothelial cells | [NAME] et al. | 15749026
129 | MANALO_HYPOXIA | Paired | Genes upregulated in human pulmonary endothelial cells under hypoxic conditions or after exposure to AdCA5, an adenovirus carrying constitutively active hypoxia-inducible factor 1 (HIF-1alpha). | [NAME] et al. | 15374877
130 | HYPOXIA_REG | Paired | Upregulated by hypoxia in renal cells, and downregulated with reoxygenation | [NAME]. | 12885785
131 | [NAME] | Paired | Upregulated by hypoxia in normal fibroblasts from both young and old donors (Table 3) | [NAME]. | 14499499
132 | CHEN_HYPOXIA | Paired | Upregulated by hypoxia in HMECs | [NAME]. | 19057672
133 | CHEN_LACTIC_ACIDOSIS | Paired | Upregulated by lactic acidosis in HMECs | [NAME]. | 19057672
134 | TGFBETA_C1 | Paired | Upregulated by TGF-beta treatment of skin fibroblasts, cluster 1 | Verrecchia et al. | 11279127
135 | [NAME] | Paired | Upregulated by TGF-beta treatment of skin fibroblasts, cluster 2 | Verrecchia et al. | 11279127
136 | TGFBETA_C3 | Paired | Upregulated by TGF-beta treatment of skin fibroblasts, cluster 3 | Verrecchia et al. | 11279127
137 | TGFBETA_C4 | Paired | Upregulated by TGF-beta treatment of skin fibroblasts, cluster 4 | Verrecchia et al. | 11279127
138 | TGFBETA_C5 | Paired | Upregulated by TGF-beta treatment of skin fibroblasts, cluster 5 | Verrecchia et al. | 11279127
139 | TGFBETA_EARLY | Paired | Upregulated by TGF-beta treatment of skin fibroblasts at 30 min (clusters 1-3) | Verrecchia et al. | 11279127
140 | TGFBETA_LATE | Paired | Upregulated by TGF-beta treatment of skin fibroblasts only at 1-4 hrs (clusters 4-6) | Verrecchia et al. | 11279127
141 | TGFBETA_ALL | Paired | Upregulated by TGF-beta treatment of skin fibroblasts, at any timepoint | Verrecchia et al. | 11279127
142 | p42_E2_v_p30_E2_ANOVA_top_50 | Single-sided | Upregulated in CEBP-a p42-activated cells compared to p30-activated cells (top 50 by ANOVA) | Unpublished | Unpublished
143 | p42_E2_v_VC_ANOVA_top_50 | Single-sided | Upregulated in CEBP-a p42-activated cells compared to vehicle control (top 50 by ANOVA) | Unpublished | Unpublished
144 | p42_E2_v_VC_Bin_Reg | Single-sided | Upregulated in CEBP-a p42-activated cells compared to vehicle control ([NAME]) | Unpublished | Unpublished
145 | p42_E2_v_VC_PAM | Single-sided | Upregulated in CEBP-a p42-activated cells compared to vehicle control (PAM) | Unpublished | Unpublished
146 | p42_E2_v_p30_E2_PAM | Single-sided | Upregulated in CEBP-a p42-activated cells compared to p30-activated cells  (PAM) | Unpublished | Unpublished
147 | AML_WT_UP_over_p42 | Single-sided | Upregulated in WT CEBPa AMLs compared to mutant AMLs and upregulated in CEBP-a p42-activated cells compared to vehicle control (PAM) | Unpublished | Unpublished
148 | Miller_p53_WT_v_mutant | Paired | Upregulated in p53 wildtype breast tumors compared to p53 mutant tumors (SAM, top 100) | [NAME] et [NAME]. | 16141321
149 | HALMOS_CEBP | Paired | Upregulated genes based on an analysis comparing 0 versus 6 h of C/EBP-alpha induction (lung cancer cells) | [NAME] et al. | 15205324
150 | TAVOR_CEBP | Paired | C/EBP-alpha upregulated genes in [NAME] cells (derived from BCR-ABL+ CML) | [NAME]. | 14517214
151 | JECHLINGER_EMT | Paired | Genes upregulated for epithelial plasticity in tumor progression | [NAME] et al. | 14562044
152 | EMT | Paired | Up-regulated during the TGFbeta-induced epithelial-to-mesenchymal transition (EMT) of Ras-transformed mouse mammary epithelial (EpH4) cells (EMT is representative of late-stage tumor progression and metastasis) | [NAME] et al. | 14562044
153 | VEGF_HUVEC | Paired | 20 genes with the largest fold-change up-regulation at any time point (30min to 24 hours) after VEGF treatment in human umbilical vein endothelial cells | [NAME] | 12197474
154 | [NAME] | Paired | Up-regulated 2 hours after VEGF treatment in human umbilical vein endothelial cells | [NAME] | 12197474
155 | VEGF_MMMEC_12HRS | Paired | Up-regulated at 12hrs follwing VEGF treatment of human myometrial microvascular endothelial cells | Weston et [NAME]. | 12200464
156 | VEGF_HUVEC_30MIN | Paired | Up-regulated 30 minutes after VEGF treatment in human umbilical vein endothelial cells | [NAME] | 12197474
157 | VEGF_MMMEC_3HRS | Paired | Up-regulated at 3hrs follwing VEGF treatment of human myometrial microvascular endothelial cells | Weston et [NAME]. | 12200464
158 | VEGF_MMMEC_6HRS | Paired | Up-regulated at 6hrs follwing VEGF treatment of human myometrial microvascular endothelial cells | Weston et [NAME]. | 12200464
159 | VEGF_MMMEC_ALL | Paired | Up-regulated at any timepoint follwing VEGF treatment of human myometrial microvascular endothelial cells | Weston et [NAME]. | 12200464
160 | BOQUEST_CD31PLUS_VS_CD31MINUS | Paired | Genes overexpressed 3-fold or more in freshly isolated CD31+ versus freshly isolated CD31- cells | Boquest et al. | 15635089
161 | [NAME] | Paired | Genes overexpressed in [NAME]+ GC cell lines | Unpublished | Unpublished
162 | CORDERO_KRAS_KD_VS_CONTROL | Paired | Genes upregulated in kras knockdown vs control in a human cell line | Sweet-Cordero et al. | 15608639
163 | DZNEP_YCC6_IM95 | Paired | Genes upregulated by [NAME] in YCC6 and IM95 | Unpublished | Unpublished
164 | her2.rma_nevins_U133A_p0.001 | Paired | Genes upregulated by her2 (Nevins signature) | [NAME]. | 20335537
165 | egfr.mas5_nevins_U133A_p0.001 | Paired | Genes upregulated by egfr ([NAME] signature) | [NAME]. | 20335538
166 | er.mas5_nevins_U133A_p0.001 | Paired | Genes upregulated by er (Nevins signature) | [NAME]. | 20335539
167 | pr.rma_nevins_U133A_p0.001 | Paired | Genes upregulated by pr (Nevins signature) | [NAME]. | 20335540
168 | stat3.mas5_nevins_U133A_p0.001 | Paired | Genes upregulated by stat3 (Nevins signature) | [NAME]. | 20335541
169 | akt.mas5_nevins_U133P2_p0.001 | Paired | Genes upregulated by [NAME] ([NAME] signature) | [NAME]. | 20335542
170 | p63.mas5_nevins_U133P2_p0.001 | Paired | Genes upregulated by p63 (Nevins signature) | [NAME]. | 20335543
171 | pi3k.rma_nevins_U133P2_p0.001 | Paired | Genes upregulated by pi3k (Nevins signature) | [NAME]. | 20335544
172 | DZNep_Global_T_vs_C_Centered_p0.001 | Paired | Genes upregulated by [NAME] in GC cell lines | [NAME]. | 20335545
173 | 5AZA_Global_T_vs_C_p0.001 | Paired | Genes upregulated by 5AZA in GC cell lines | [NAME]. | 20335546
174 | NELSON_ANDROGEN | Paired | Genes upregulated by androgen in neoplastic prostate epithelium | [NAME] et al. | 12185249