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Breast Cancer Analysis

H3k27m3 (Control) and E2 Over-Expression in RNASEQ

CAMK1D LOC442421 KALRN LRP12 SMCR8
TPK1 LRRC37A4 FAM190A ENOSF1 ANKRD5
MAML3 CBLN4 ZNF700 ADAMTS9 GPNMB
C14orf132 LOC100130238 FXYD2,FXYD6,FXYD6-FXYD2 DAPK1 CNOT4
ZNF595,ZNF718 SDK2 ZNF7 HEATR5A TEKT4P2
CDH26 FOXN3 SNAP25 LOC100132352 TYMS
CREB3L1 ABCA10,ABCA5 RNF144A NFIX LOC100616530

H3k27m3 (EDC=E2) and E2 Suppression in RNASEQ

ARHGEF18 HSF2BP MPP5 WWOX

H3k27m3 (Control) and E2 Over-Expression

Gene Symbol E2 Fold (log2) P-Value
CAMK1D 0.369378 0.02455
CREB3L1 0.982028 0.00025
FXYD2,FXYD6,FXYD6-FXYD2 1.60185 5e-05
LOC100130238 2.09766 5e-05
C14orf132 0.341118 5e-05
HEATR5A 0.237802 0.0019
FOXN3 0.22446 0.0052
SMCR8 0.291816 0.05775
LRRC37A4 0.589873 5e-05
ABCA10,ABCA5 0.303071 0.00025
SDK2 2.31858 5e-05
LRRC37A4 0.589873 5e-05
TYMS 0.286745 0.05285
ENOSF1 0.203501 0.06635
ZNF700 0.469253 5e-05
NFIX 0.459249 0.0002
RNF144A 0.799512 5e-05
ANKRD5 0.291569 0.0001
SNAP25 1.43269 0.00645
CDH26 0.94795 5e-05
CBLN4 0.683246 0.0156
TEKT4P2 0.355999 0.002
KALRN 0.364142 0.00065
ADAMTS9 2.05224 5e-05
ZNF595,ZNF718 0.237234 0.00045
FAM190A 0.33546 0.00885
MAML3 0.679033 5e-05
GPNMB 1.52473 5e-05
CNOT4 0.135855 0.097
TPK1 0.533127 0.017
LOC100616530 2.87534 0.00275
ZNF7 0.292453 5e-05
LRP12 0.497832 5e-05
LOC442421 0.452944 0.0184
LOC100132352 0.279475 0.07615
DAPK1 0.331014 0.0053

H3k27m3 (EDC=E2) and E2 Suppression

Gene Symbol E2 Fold (log2) P-Value
MPP5 -0.145764 0.05515
WWOX -0.31356 0.0015
ARHGEF18 -0.25953 5e-05
HSF2BP -0.391834 0.046

H3k27m3 (Control) and E2 Over-Expression Most Common GO Terms

GO Terms by Gene
David Clusters
Complete proteome 17 Genes
Reference proteome 17 Genes
Phosphoprotein 11 Genes
Alternative splicing 11 Genes
Repeat 8 Genes
Membrane 8 Genes
Glycoprotein 6 Genes
Transmembrane helix 6 Genes
Transmembrane 6 Genes
3D-structure 5 Genes
Signal 5 Genes
Nucleus 5 Genes
Cytoplasm 4 Genes
Transferase 4 Genes
Transcription regulation 4 Genes
Disulfide bond 4 Genes
Transcription 4 Genes
DNA-binding 3 Genes
Nucleotide-binding 3 Genes
ATP-binding 3 Genes

H3k27m3 (EDC=E2) and E2 Suppression Most Common GO Terms

GO Terms by Gene
David Clusters

Complete proteome 2 Genes
Reference proteome 2 Genes
Phosphoprotein 2 Genes
Repeat 2 Genes
Tight junction 1 Genes
Cell junction 1 Genes
NADP 1 Genes
Oxidoreductase 1 Genes
Mitochondrion 1 Genes
Membrane 1 Genes
SH3 domain 1 Genes
Nucleus 1 Genes
3D-structure 1 Genes
Cell membrane 1 Genes
Alternative splicing 1 Genes
Apoptosis 1 Genes
Cytoplasm 1 Genes
Tumor suppressor 1 Genes
Wnt signaling pathway 1 Genes
Ubl conjugation 1 Genes

Enriched TFBS

H3k27m3 (Control) and E2 Over-Expression Enriched Transcription Factors Upstream

Upstream Transcription Factors
Full TFBS Enrichment Table

PUR1 NRSF REST CLOCK:BMAL NF-kappaB
STAT6 HNF4 IRF NF-kappaB NRSE

H3k27m3 (EDC=E2) and E2 Suppression Enriched Transcription Factors Upstream

Upstream Transcription Factors
Full TFBS Enrichment Table

RFX1AP-1 NF-E2 NRF-1 hbp1

Essential ERE Sequence

5-GGTCAnnnTGACC-3

Perfect ERE Sequence

TCAGGTCACAGTGACCTGA

ERE Search Histogram

H3k27m3 (Control) and E2 Expression ERE Motifs Found

H3k27m3 (EDC=E2) and E2 Suppression ERE Motifs Found

H3k27m3 (Control) and E2 Over-Expression Transcription Factors

H3k27m3 (EDC=E2) and E2 Suppression Transcription Factors

H3k27m3 (Control) and E2 Over-Expression Oncomine Datasets

Gene Cancer Type P-Value Fold Change
KALRN Medullary Breast Carcinoma 0.03 1.069
Ductal Breast Carcinoma 5.78E-06 1.217
Invasive Lobular Breast Carcinoma 0.044 1.352
Invasive Ductal and Lobular Carcinoma 0.014 1.044
CAMK1D Lobular Breast Carcinoma 1.68E-05 2.015
Invasive Ductal Breast Carcinoma 2.13E-05 2.19
Mucinous Breast Carcinoma 1.85E-04 1.738
Mixed Lobular and Ductal Breast Carcinoma 0.002 1.676
Invasive Breast Carcinoma Stroma 1.13E-13 5.926
Medullary Breast Carcinoma 1.41E-08 1.489
Ductal Breast Carcinoma in Situ 0.002 1.515
Invasive Lobular Breast Carcinoma 1.30E-11 1.246
Invasive Ductal Breast Carcinoma 2.67E-24 1.267
GPNMB Invasive Breast Carcinoma Stroma 1.49E-17 4.038
Ductal Breast Carcinoma 1.68E-06 2.342
Invasive Ductal Breast Carcinoma Stroma 0.002 1.91
Ductal Breast Carcinoma in Situ Epithelia 0.011 1.56
ZNF595 Invasive Ductal Breast Carcinoma Epithelia 0.036 1.169
C14orf13 Mixed Lobular and Ductal Breast Carcinoma 0.092 1.184
DAPK1 Invasive Ductal Breast Carcinoma Stroma 3.06E-05 2.372
Ductal Breast Carcinoma in Situ Stroma 2.93E-04 2.196
Invasive Ductal Breast Carcinoma Epithelia 0.025 1.065
Lobular Breast Carcinoma 0.007 2.225
Invasive Ductal Breast Carcinoma Stroma 8.39E-05 2.97
Ductal Breast Carcinoma 0.005 1.265
CDH26 Invasive Ductal Breast Carcinoma Epithelia 8.04E-04 1.212
Ductal Breast Carcinoma in Situ Epithelia 0.002 1.268
FOXN3 Ductal Breast Carcinoma in Situ 0.024 5.824
Invasive Ductal Breast Carcinoma 0.04 1.389
CREB3L1 Invasive Ductal Breast Carcinoma Stroma 3.87E-04 1.466
Ductal Breast Carcinoma in Situ Stroma 0.002 1.48
Invasive Ductal Breast Carcinoma 0.005 2.746
Invasive Lobular Breast Carcinoma 0.009 2.491
Ductal Breast Carcinoma in Situ 0.022 3.164
Invasive Mixed Breast Carcinoma 0.012 2.347
Invasive Breast Carcinoma 2.43E-17 2.563
Invasive Ductal and Lobular Carcinoma 1.96E-04 2.524
RNF144A Invasive Ductal Breast Carcinoma Stroma 0.01 2.025
Breast Phyllodes Tumor 0.016 1.855
CBLN4 Ductal Breast Carcinoma 0.0102.526

H3k27m3 (EDC=E2) and E2 Suppression Oncomine Datasets

Gene Cancer Type P-Value Fold Change
MPP5 Invasive Lobular Breast Carcinoma 0.022 -2.763
WWOX Invasive Lobular Breast Carcinoma 7.66E-29 -1.333
Invasive Ductal Breast Carcinoma 7.69E-70 -1.183
Mixed Lobular and Ductal Breast Carcinoma 0.004 -1.293
Invasive Ductal and Lobular Carcinoma 3.35E-04 -1.177
Medullary Breast Carcinoma 0.034 -1.192

CAMK1D
http://www.ncbi.nlm.nih.gov/pubmed/19383354
MAML3
http://www.ncbi.nlm.nih.gov/pubmed/22069191
GPNMB
http://cancerres.aacrjournals.org/cgi/content/abstract/69/24_MeetingAbstracts/6096?sid=86581d39-486c-4dc5-95b3-63454efd0cec
http://mcr.aacrjournals.org/content/5/10/1001.full
http://clincancerres.aacrjournals.org/content/16/7/2147
DAPK1
http://cancerres.aacrjournals.org/cgi/content/meeting_abstract/72/8_MeetingAbstracts/82
http://www.jbc.org/content/282/18/13791.long
http://www.cell.com/molecular-cell/abstract/S1097-2765(11)00203-6
http://www.ncbi.nlm.nih.gov/pubmed/20471512
FOXN3
http://breast-cancer-research.com/content/13/2/r24
CREB3L1
http://www.ncbi.nlm.nih.gov/pubmed/23256041
http://www.ncbi.nlm.nih.gov/pubmed/24126059
RNF144A
http://www.ncbi.nlm.nih.gov/pubmed/22184113
WWOX
http://www.ncbi.nlm.nih.gov/pubmed/15692750
http://www.ncbi.nlm.nih.gov/pubmed/21983861
http://www.sciencedirect.com/science/article/pii/S0748798305003197
http://cancerres.aacrjournals.org/content/67/19/9330.full.pdf
http://www.nature.com/onc/journal/v21/n12/full/1205273a.html
http://www.ncbi.nlm.nih.gov/pubmed/24510053
http://www.ncbi.nlm.nih.gov/pubmed/24393846
http://www.ncbi.nlm.nih.gov/pubmed/24330518
http://www.ncbi.nlm.nih.gov/pubmed/23710914
http://www.ncbi.nlm.nih.gov/pubmed/23566416
http://www.ncbi.nlm.nih.gov/pubmed/23381945
http://www.ncbi.nlm.nih.gov/pubmed/23254778
http://www.ncbi.nlm.nih.gov/pubmed/22806168
http://www.ncbi.nlm.nih.gov/pubmed/22717556
http://www.ncbi.nlm.nih.gov/pubmed/22574198
http://www.ncbi.nlm.nih.gov/pubmed/22484428
http://www.ncbi.nlm.nih.gov/pubmed/21499303
http://www.ncbi.nlm.nih.gov/pubmed/21069451
http://www.ncbi.nlm.nih.gov/pubmed/20401669
http://www.ncbi.nlm.nih.gov/pubmed/20190683