PBX3 - Factorbook

Pre-B-cell leukemia transcription factor 3 is a protein that in humans is encoded by the PBX3 gene.wikipedia

PBX3

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Wikipedia	PBX3

Average Profiles of Modified Histones around the Summit of ChIP-seq Peaks

A549 - Myers - ENCSR000BTN

GM12878 - Myers - ENCSR000BGR

SK-N-SH - Myers - ENCSR000BVE

Legend

Proximal:

H2AFZ
H3K27ac
H3K27me3
H3K36me3
H3K4me1
H3K4me2
H3K4me3
H3K79me2
H3K9ac
H3K9me1
H3K9me3
H4K20me1

Distal:

H2AFZ
H3K27ac
H3K27me3
H3K36me3
H3K4me1
H3K4me2
H3K4me3
H3K79me2
H3K9ac
H3K9me1
H3K9me3
H4K20me1

Notes

Average histone modification profiles are shown for the [-2 kb, +2 kb] window around the summits of TF ChIP-seq peaks. Profile are shown separately for peaks that are proximal ([-1 kb, +1 kb]; ending in '-p') to an annotated transcript start site (TSS) and for peaks that are distal (>1 kb; ending in '-d') to all annotated TSS. TSS-proximal profiles are arranged such that the nearest transcript proceeds towards the right.

Motifs Enriched in the Top 500 ChIP-seq Peaks

A549 - Myers - ENCSR000BTN

1. 127 / 500 1.2e-51 TTCTGATTGGCTGAT		p-value: 0.00 pct_center: 0.20 pct_ratio: 1.51
2. 107 / 500 1.3e-32 GGGGAGGGGGGAGGAGGGGAGGGAGGGGGG		p-value: 0.00 pct_center: 0.73 pct_ratio: 0.53
3. 20 / 500 1.8e-23 TGATTGGTTAGAATGGCTGTCAATCAA		p-value: 0.00 pct_center: 0.12 pct_ratio: 1.27
4. 16 / 500 5.4e-13 ATTTGTTTAAAAAAAAAAAAAAAGTC		p-value: 1.00 pct_center: 0.05 pct_ratio: 0.21
5. 14 / 500 1.4e-9 AGACCAGCCTGGGCAACAGGG		p-value: 1.00 pct_center: 0.15 pct_ratio: 0.41

MEME output

Notes

The top 500 TF ChIP-seq peaks were used to identify enriched motifs de novo, using the MEME-ChIP suite of tools. Up to five motifs are reported (1 to 5) if they meet the criteria defined by our pipeline.

GM12878 - Myers - ENCSR000BGR

1. 500 / 500 1.0e-439 TGATTGACAGGCGCG		p-value: 0.00 pct_center: 0.41 pct_ratio: 1.90
2. 355 / 500 6.0e-332 GGCCAATGGGA		p-value: 0.00 pct_center: 0.15 pct_ratio: 1.43
3. 193 / 500 2.1e-89 GAGGGGGCGGGGCCT		p-value: 0.00 pct_center: 0.34 pct_ratio: 0.66
4. 9 / 500 2.4e-20 ACACTGGGCTGAATGAAGAAAGAGTGACA		p-value: 0.00 pct_center: 0.11 pct_ratio: 0.63
5. 10 / 500 2.9e-9 GCCTTCTGGGAAATGTAGTTC		p-value: 0.00 pct_center: 0.09 pct_ratio: 0.49

MEME output

Notes

SK-N-SH - Myers - ENCSR000BVE

1. 86 / 500 4.4e-67 GGGGCGGGGGCGGGGGTGGGG		p-value: 0.37 pct_center: 0.24 pct_ratio: 0.52
2. 54 / 500 4.2e-18 AAAAAAAAAAAAGAA		p-value: 1.00 pct_center: 0.24 pct_ratio: 0.36
3. 44 / 500 8.8e-12 GGAGCCGCCGCCCCGGCCGGGAGCCCGGG		p-value: 0.00 pct_center: 0.19 pct_ratio: 0.86
4. 81 / 500 1.9e-7 ATGAGTCATTT		p-value: 0.00 pct_center: 0.32 pct_ratio: 1.72
5. 36 / 500 0.000087 TCAGAGAAGATGACAGAGGAA		p-value: 0.94 pct_center: 0.29 pct_ratio: 0.51

MEME output

Notes

Binding of other histone marks at PBX3 peaks

A549 - Myers - ENCSR000BTN

A549 Myers PBX3 ENCSR000BTN r=1.00
A549 Myers H3K27ac ENCSR000AVF r=0.33
A549 Myers H3K9ac ENCSR000ASV r=0.31
A549 Myers H3K4me3 ENCSR000ASH r=0.31
A549 Myers H3K27ac ENCSR000AUI r=0.30
A549 Myers H3K4me3 ENCSR000AST r=0.30
A549 Myers H2AFZ ENCSR000AUG r=0.30
A549 Myers H3K4me2 ENCSR000AVI r=0.29
A549 Myers H3K4me3 ENCSR000DPD r=0.28
A549 Myers H2AFZ ENCSR000AUH r=0.28
A549 Myers H3K4me2 ENCSR000ATO r=0.28
A549 Myers H3K4me1 ENCSR000AUM r=0.12
A549 Myers H3K4me1 ENCSR000AVH r=0.11
A549 Myers H4K20me1 ENCSR000AUO r=0.09
A549 Myers H3K79me2 ENCSR000ASU r=0.07
A549 Myers H3K79me2 ENCSR000ATP r=0.07
A549 Myers H3K36me3 ENCSR000AUL r=0.04
A549 Myers H3K36me3 ENCSR000AVG r=0.03
A549 Myers H3K27me3 ENCSR000AUK r=-0.01
A549 Myers H3K9me3 ENCSR000AUN r=-0.04
A549 Myers H3K27me3 ENCSR000AUJ r=-0.06

4,349 peaks (download )

GM12878 - Myers - ENCSR000BGR

GM12878 Myers PBX3 ENCSR000BGR r=1.00
GM12878 Myers H2AFZ ENCSR000AOV r=0.19
GM12878 Myers H3K9ac ENCSR000AKH r=0.17
GM12878 Myers H3K4me3 ENCSR000DRY r=0.16
GM12878 Myers H3K4me3 ENCSR000AKA r=0.14
GM12878 Myers H3K27ac ENCSR000AKC r=0.13
GM12878 Myers H3K4me2 ENCSR000AKG r=0.12
GM12878 Myers H3K79me2 ENCSR000AOW r=0.05
GM12878 Myers H4K20me1 ENCSR000AKI r=0.02
GM12878 Myers H3K9me3 ENCSR000AOX r=0.01
GM12878 Myers H3K4me1 ENCSR000AKF r=0.01
GM12878 Myers H3K36me3 ENCSR000DRW r=-0.00
GM12878 Myers H3K27me3 ENCSR000AKD r=-0.01
GM12878 Myers H3K27me3 ENCSR000DRX r=-0.01
GM12878 Myers H3K36me3 ENCSR000AKE r=-0.04

9,941 peaks (download )

SK-N-SH - Myers - ENCSR000BVE

SK-N-SH Myers PBX3 ENCSR000BVE r=1.00
SK-N-SH Myers H3K4me3 ENCSR000DXR r=0.13
SK-N-SH Myers H3K27me3 ENCSR000DXP r=0.01
SK-N-SH Myers H3K36me3 ENCSR000DXO r=-0.01

10,000 randomly-selected peaks from a total of 31,604 (download )

Notes

ChIP-seq peaks (left to right in the heatmap) for the current TF are sorted by descending TF ChIP-seq signal. The ChIP-seq signals of histone modifications are plotted for the genomic regions that correspond to the peaks of the current TF in the same order. The Pearson correlation coefficient (r) of the histone modification ChIP-seq signal with the TF ChIP-seq signal is shown.

Binding of other TFs at PBX3 peaks

A549 - Myers - ENCSR000BTN

A549 Myers PBX3 ENCSR000BTN r=1.00
A549 Myers SP1 ENCSR000BPE r=0.59
A549 Myers MAX ENCSR000BTJ r=0.48
A549 Myers TEAD4 ENCSR000BUD r=0.47
A549 Myers CREB1 ENCSR000BRB r=0.47
A549 Myers GATA3 ENCSR000BTI r=0.47
A549 Myers MAX ENCSR000DYG r=0.43
A549 Myers BCL3 ENCSR000BQH r=0.42
A549 Myers ZBTB33 ENCSR000BPZ r=0.42
A549 Myers SIN3A ENCSR000BRM r=0.42
A549 Myers JUND ENCSR000BRF r=0.41
A549 Myers TCF12 ENCSR000BQQ r=0.41
A549 Myers ETS1 ENCSR000BPU r=0.39
A549 Myers MYC ENCSR000DYC r=0.39
A549 Myers CEBPB ENCSR000BUB r=0.38
A549 Myers BHLHE40 ENCSR000DYJ r=0.38
A549 Myers FOSL2 ENCSR000BQO r=0.37
A549 Myers RAD21 ENCSR000DYE r=0.37
A549 Myers E2F6 ENCSR000BTC r=0.37
A549 Myers REST ENCSR000BQP r=0.36
A549 Myers RAD21 ENCSR000BUC r=0.35
A549 Myers ATF3 ENCSR000BPS r=0.33
A549 Myers SIX5 ENCSR000BRL r=0.33
A549 Myers CEBPB ENCSR000DYI r=0.33
A549 Myers FOXA2 ENCSR000BRE r=0.33
A549 Myers YY1 ENCSR000BPM r=0.32
A549 Myers NR3C1 ENCSR000BJR r=0.32
A549 Myers POLR2A ENCSR000BHH r=0.32
A549 Myers USF1 ENCSR000BHX r=0.32
A549 Myers POLR2A ENCSR000BHI r=0.31
A549 Myers ELF1 ENCSR000BPT r=0.30
A549 Myers GABPA ENCSR000BPY r=0.30
A549 Myers TAF1 ENCSR000BPF r=0.30
A549 Myers NR3C1 ENCSR000BHF r=0.29
A549 Myers EP300 ENCSR000BPW r=0.29
A549 Myers POLR2A ENCSR000DMZ r=0.28
A549 Myers CTCF ENCSR000DYD r=0.25
A549 Myers NR3C1 ENCSR000BHG r=0.24
A549 Myers USF1 ENCSR000BJB r=0.23
A549 Myers FOXA1 ENCSR000BPX r=0.23
A549 Myers NR3C1 ENCSR000BHE r=0.23
A549 Myers USF1 ENCSR000BPV r=0.22
A549 Myers CTCF ENCSR000AUF r=0.16
A549 Myers CTCF ENCSR000DNA r=0.14
A549 Myers CTCF ENCSR000AUE r=0.13
A549 Myers CTCF ENCSR000BHV r=0.11
A549 Myers CTCF ENCSR000DPF r=0.10
A549 Myers CTCF ENCSR000BHW r=0.10

4,349 peaks (download )

GM12878 - Myers - ENCSR000BGR

GM12878 Myers PBX3 ENCSR000BGR r=1.00
GM12878 Myers FOS ENCSR000EYZ r=0.44
GM12878 Myers SP1 ENCSR000BHK r=0.43
GM12878 Myers NFYB ENCSR000DNM r=0.39
GM12878 Myers NFYA ENCSR000DNN r=0.36
GM12878 Myers IRF3 ENCSR000DZX r=0.35
GM12878 Myers CREB1 ENCSR000BUF r=0.32
GM12878 Myers BCL3 ENCSR000BNQ r=0.30
GM12878 Myers POU2F2 ENCSR000BGP r=0.30
GM12878 Myers TCF3 ENCSR000BQT r=0.29
GM12878 Myers NFATC1 ENCSR000BQL r=0.28
GM12878 Myers RFX5 ENCSR000DZW r=0.26
GM12878 Myers POLR2A ENCSR000BGD r=0.25
GM12878 Myers BRCA1 ENCSR000DZS r=0.25
GM12878 Myers ELF1 ENCSR000BMB r=0.24
GM12878 Myers PAX5 ENCSR000BHD r=0.24
GM12878 Myers POLR2A ENCSR000EYW r=0.23
GM12878 Myers ELK1 ENCSR000DZB r=0.23
GM12878 Myers STAT1 ENCSR000DZM r=0.22
GM12878 Myers POLR2A ENCSR000DKT r=0.22
GM12878 Myers E2F4 ENCSR000DYY r=0.22
GM12878 Myers TBP ENCSR000DZZ r=0.22
GM12878 Myers MYC ENCSR000DKU r=0.22
GM12878 Myers POLR2A ENCSR000EAD r=0.22
GM12878 Myers PML ENCSR000BQM r=0.22
GM12878 Myers MXI1 ENCSR000DZI r=0.21
GM12878 Myers GABPA ENCSR000BGC r=0.21
GM12878 Myers MAX ENCSR000DZF r=0.21
GM12878 Myers ZBTB33 ENCSR000BHC r=0.20
GM12878 Myers NRF1 ENCSR000DZO r=0.20
GM12878 Myers FOXM1 ENCSR000BRU r=0.20
GM12878 Myers TBL1XR1 ENCSR000DYZ r=0.20
GM12878 Myers TCF12 ENCSR000BGZ r=0.20
GM12878 Myers RCOR1 ENCSR000DZC r=0.19
GM12878 Myers SREBF1 ENCSR000DYU r=0.19
GM12878 Myers PAX5 ENCSR000BHJ r=0.19
GM12878 Myers BHLHE40 ENCSR000DZJ r=0.19
GM12878 Myers ESRRA ENCSR000DYQ r=0.19
GM12878 Myers RUNX3 ENCSR000BRI r=0.19
GM12878 Myers EGR1 ENCSR000BRG r=0.18
GM12878 Myers JUND ENCSR000DYS r=0.18
GM12878 Myers MAFK ENCSR000DYV r=0.18
GM12878 Myers ATF2 ENCSR000BQK r=0.18
GM12878 Myers ZNF143 ENCSR000DZL r=0.17
GM12878 Myers SREBF2 ENCSR000DYT r=0.17
GM12878 Myers USF2 ENCSR000DZU r=0.17
GM12878 Myers NFIC ENCSR000BRN r=0.17
GM12878 Myers SIN3A ENCSR000DYX r=0.17
GM12878 Myers YY1 ENCSR000BNP r=0.16
GM12878 Myers SRF ENCSR000BGE r=0.16
GM12878 Myers CEBPB ENCSR000BRX r=0.16
GM12878 Myers SIX5 ENCSR000BJE r=0.16
GM12878 Myers BCL11A ENCSR000BHA r=0.16
GM12878 Myers EP300 ENCSR000BHB r=0.16
GM12878 Myers NR2C2 ENCSR000EUL r=0.16
GM12878 Myers STAT5A ENCSR000BQZ r=0.16
GM12878 Myers TAF1 ENCSR000BGS r=0.16
GM12878 Myers EGR1 ENCSR000BMQ r=0.15
GM12878 Myers IRF4 ENCSR000BGY r=0.15
GM12878 Myers CUX1 ENCSR000DYR r=0.15
GM12878 Myers RELA ENCSR000EAG r=0.15
GM12878 Myers SRF ENCSR000BMI r=0.15
GM12878 Myers WRNIP1 ENCSR000EAA r=0.15
GM12878 Myers KAT2A ENCSR000DNO r=0.15
GM12878 Myers ETS1 ENCSR000BKA r=0.14
GM12878 Myers STAT3 ENCSR000DZV r=0.14
GM12878 Myers NFE2 ENCSR000DZY r=0.13
GM12878 Myers EP300 ENCSR000DZD r=0.13
GM12878 Myers USF1 ENCSR000BGI r=0.13
GM12878 Myers CHD1 ENCSR000DZE r=0.12
GM12878 Myers EP300 ENCSR000DZG r=0.12
GM12878 Myers RXRA ENCSR000BJD r=0.12
GM12878 Myers MEF2A ENCSR000BKB r=0.12
GM12878 Myers SMC3 ENCSR000DZP r=0.12
GM12878 Myers MTA3 ENCSR000BRH r=0.11
GM12878 Myers REST ENCSR000BGF r=0.11
GM12878 Myers ZNF384 ENCSR000DYP r=0.11
GM12878 Myers EBF1 ENCSR000BGU r=0.11
GM12878 Myers BATF ENCSR000BGT r=0.11
GM12878 Myers RAD21 ENCSR000EAC r=0.10
GM12878 Myers EBF1 ENCSR000DZQ r=0.09
GM12878 Myers MEF2C ENCSR000BNG r=0.09
GM12878 Myers YY1 ENCSR000EUM r=0.08
GM12878 Myers CTCF ENCSR000DZN r=0.08
GM12878 Myers SUPT20H ENCSR000DNP r=0.07
GM12878 Myers REST ENCSR000BQS r=0.07
GM12878 Myers ZEB1 ENCSR000BND r=0.07
GM12878 Myers SPI1 ENCSR000BGQ r=0.07
GM12878 Myers JUND ENCSR000EYV r=0.07
GM12878 Myers POLR3G ENCSR000EYU r=0.07
GM12878 Myers CTCF ENCSR000AKB r=0.06
GM12878 Myers EZH2 ENCSR000ARD r=0.06
GM12878 Myers CTCF ENCSR000DKV r=0.05
GM12878 Myers RAD21 ENCSR000BMY r=0.05
GM12878 Myers ATF3 ENCSR000BJY r=0.04
GM12878 Myers IKZF1 ENCSR000EUJ r=0.04
GM12878 Myers CTCF ENCSR000DRZ r=0.03
GM12878 Myers ZZZ3 ENCSR000DNQ r=0.02
GM12878 Myers ZNF274 ENCSR000EUK r=-0.04

9,941 peaks (download )

SK-N-SH - Myers - ENCSR000BVE

SK-N-SH Myers PBX3 ENCSR000BVE r=1.00
SK-N-SH Myers TCF12 ENCSR000BSL r=0.78
SK-N-SH Myers EP300 ENCSR000BUA r=0.77
SK-N-SH Myers JUND ENCSR000BSK r=0.75
SK-N-SH Myers GATA3 ENCSR000BTH r=0.74
SK-N-SH Myers NFIC ENCSR000BSV r=0.72
SK-N-SH Myers FOSL2 ENCSR000BVB r=0.71
SK-N-SH Myers JUND ENCSR000EIB r=0.68
SK-N-SH Myers RXRA ENCSR000BVG r=0.66
SK-N-SH Myers EP300 ENCSR000BMA r=0.63
SK-N-SH Myers TEAD4 ENCSR000BUQ r=0.61
SK-N-SH Myers ZBTB33 ENCSR000BTS r=0.61
SK-N-SH Myers EP300 ENCSR000EHV r=0.60
SK-N-SH Myers MEF2A ENCSR000BVC r=0.60
SK-N-SH Myers MAX ENCSR000BVD r=0.54
SK-N-SH Myers ELF1 ENCSR000BTA r=0.52
SK-N-SH Myers FOXM1 ENCSR000BTB r=0.51
SK-N-SH Myers SMC3 ENCSR000EHW r=0.42
SK-N-SH Myers RFX5 ENCSR000EHY r=0.40
SK-N-SH Myers RAD21 ENCSR000EHX r=0.38
SK-N-SH Myers USF1 ENCSR000BTZ r=0.38
SK-N-SH Myers GABPA ENCSR000BTG r=0.37
SK-N-SH Myers RAD21 ENCSR000BLY r=0.35
SK-N-SH Myers MXI1 ENCSR000EIA r=0.35
SK-N-SH Myers REST ENCSR000BOZ r=0.31
SK-N-SH Myers YY1 ENCSR000BSM r=0.31
SK-N-SH Myers NRF1 ENCSR000EHZ r=0.29
SK-N-SH Myers SIN3A ENCSR000BPB r=0.26
SK-N-SH Myers CTCF ENCSR000EIC r=0.24
SK-N-SH Myers YY1 ENCSR000BLZ r=0.23
SK-N-SH Myers USF1 ENCSR000BMF r=0.21
SK-N-SH Myers TAF1 ENCSR000BQF r=0.16
SK-N-SH Myers CTCF ENCSR000DXQ r=0.11
SK-N-SH Myers REST ENCSR000BJJ r=0.10
SK-N-SH Myers CTCF ENCSR000BLX r=0.07

10,000 randomly-selected peaks from a total of 31,604 (download )

Notes

Peaks (left to right in the heatmap) are sorted by the descending order of [-log10(q-value), -log10(p-value), TF ChIP-seq signal].

Average Profiles of Nucleosomes around the Summit of ChIP-seq Peaks

GM12878 - Myers - ENCSR000BGR

Notes

Average nucleosome occupancy profiles in GM12878 and K562 cells are shown for the [-2 kb, +2 kb] window centered on the summits of the TF ChIP-seq peaks, separately for peaks that are proximal to an annotated transcription start site (red lines) and for peaks that are distal to all annotated transcription start sites (blue lines), as defined in the Histone section.