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Gene: PABPC1 |
Gene summary for PABPC1 |
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Gene information | Species | Human | Gene symbol | PABPC1 | Gene ID | 26986 |
Gene name | poly(A) binding protein cytoplasmic 1 | |
Gene Alias | PAB1 | |
Cytomap | 8q22.3 | |
Gene Type | protein-coding | GO ID | GO:0000184 | UniProtAcc | A0A024R9C1 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
26986 | PABPC1 | GSM4909281 | Human | Breast | IDC | 4.94e-39 | 4.02e-01 | 0.21 |
26986 | PABPC1 | GSM4909286 | Human | Breast | IDC | 2.58e-44 | 4.36e-01 | 0.1081 |
26986 | PABPC1 | GSM4909287 | Human | Breast | IDC | 4.18e-06 | 3.94e-02 | 0.2057 |
26986 | PABPC1 | GSM4909288 | Human | Breast | IDC | 1.09e-03 | -2.69e-01 | 0.0988 |
26986 | PABPC1 | GSM4909290 | Human | Breast | IDC | 3.53e-03 | 1.90e-01 | 0.2096 |
26986 | PABPC1 | GSM4909291 | Human | Breast | IDC | 1.22e-13 | 3.46e-01 | 0.1753 |
26986 | PABPC1 | GSM4909293 | Human | Breast | IDC | 6.64e-03 | -1.15e-01 | 0.1581 |
26986 | PABPC1 | GSM4909294 | Human | Breast | IDC | 1.30e-14 | -3.35e-01 | 0.2022 |
26986 | PABPC1 | GSM4909296 | Human | Breast | IDC | 1.23e-05 | -1.23e-01 | 0.1524 |
26986 | PABPC1 | GSM4909297 | Human | Breast | IDC | 2.55e-29 | -3.26e-01 | 0.1517 |
26986 | PABPC1 | GSM4909301 | Human | Breast | IDC | 2.64e-25 | -6.07e-01 | 0.1577 |
26986 | PABPC1 | GSM4909302 | Human | Breast | IDC | 8.56e-22 | -5.49e-01 | 0.1545 |
26986 | PABPC1 | GSM4909304 | Human | Breast | IDC | 1.16e-04 | -1.86e-01 | 0.1636 |
26986 | PABPC1 | GSM4909307 | Human | Breast | IDC | 1.54e-19 | -4.95e-01 | 0.1569 |
26986 | PABPC1 | GSM4909308 | Human | Breast | IDC | 2.11e-11 | -2.09e-01 | 0.158 |
26986 | PABPC1 | GSM4909309 | Human | Breast | IDC | 3.50e-17 | -5.02e-01 | 0.0483 |
26986 | PABPC1 | GSM4909311 | Human | Breast | IDC | 1.15e-54 | 1.12e-01 | 0.1534 |
26986 | PABPC1 | GSM4909312 | Human | Breast | IDC | 2.17e-29 | 3.48e-01 | 0.1552 |
26986 | PABPC1 | GSM4909315 | Human | Breast | IDC | 2.08e-38 | -7.79e-01 | 0.21 |
26986 | PABPC1 | GSM4909316 | Human | Breast | IDC | 5.34e-13 | -6.98e-01 | 0.21 |
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∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage. |
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Malignant transformation related pathway analysis |
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Tissue | Disease Stage | Enriched GO biological Processes |
Oral cavity | OSCC | ![]() |
Oral cavity | LP | ![]() |
Oral cavity | EOLP | ![]() |
Oral cavity | NEOLP | ![]() |
Esophagus | HGIN | ![]() |
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00083809 | Breast | Precancer | RNA splicing | 65/1080 | 434/18723 | 1.27e-12 | 2.53e-10 | 65 |
GO:00064179 | Breast | Precancer | regulation of translation | 67/1080 | 468/18723 | 4.71e-12 | 7.64e-10 | 67 |
GO:00457279 | Breast | Precancer | positive regulation of translation | 32/1080 | 136/18723 | 5.89e-12 | 9.27e-10 | 32 |
GO:00003759 | Breast | Precancer | RNA splicing, via transesterification reactions | 52/1080 | 324/18723 | 1.74e-11 | 2.22e-09 | 52 |
GO:00003779 | Breast | Precancer | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 51/1080 | 320/18723 | 3.55e-11 | 4.04e-09 | 51 |
GO:00003989 | Breast | Precancer | mRNA splicing, via spliceosome | 51/1080 | 320/18723 | 3.55e-11 | 4.04e-09 | 51 |
GO:00342509 | Breast | Precancer | positive regulation of cellular amide metabolic process | 33/1080 | 162/18723 | 1.72e-10 | 1.77e-08 | 33 |
GO:00160329 | Breast | Precancer | viral process | 58/1080 | 415/18723 | 3.42e-10 | 3.16e-08 | 58 |
GO:00190589 | Breast | Precancer | viral life cycle | 47/1080 | 317/18723 | 2.42e-09 | 1.99e-07 | 47 |
GO:00507929 | Breast | Precancer | regulation of viral process | 27/1080 | 164/18723 | 7.59e-07 | 3.05e-05 | 27 |
GO:19033118 | Breast | Precancer | regulation of mRNA metabolic process | 38/1080 | 288/18723 | 1.63e-06 | 5.97e-05 | 38 |
GO:00190799 | Breast | Precancer | viral genome replication | 22/1080 | 131/18723 | 5.63e-06 | 1.66e-04 | 22 |
GO:00313309 | Breast | Precancer | negative regulation of cellular catabolic process | 34/1080 | 262/18723 | 8.16e-06 | 2.20e-04 | 34 |
GO:00064028 | Breast | Precancer | mRNA catabolic process | 31/1080 | 232/18723 | 1.12e-05 | 2.93e-04 | 31 |
GO:19039009 | Breast | Precancer | regulation of viral life cycle | 23/1080 | 148/18723 | 1.31e-05 | 3.30e-04 | 23 |
GO:00064018 | Breast | Precancer | RNA catabolic process | 34/1080 | 278/18723 | 2.88e-05 | 6.39e-04 | 34 |
GO:19033129 | Breast | Precancer | negative regulation of mRNA metabolic process | 16/1080 | 92/18723 | 6.70e-05 | 1.35e-03 | 16 |
GO:00098959 | Breast | Precancer | negative regulation of catabolic process | 36/1080 | 320/18723 | 9.92e-05 | 1.83e-03 | 36 |
GO:00346558 | Breast | Precancer | nucleobase-containing compound catabolic process | 42/1080 | 407/18723 | 1.91e-04 | 3.06e-03 | 42 |
GO:00098969 | Breast | Precancer | positive regulation of catabolic process | 48/1080 | 492/18723 | 2.62e-04 | 3.84e-03 | 48 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa030186 | Breast | Precancer | RNA degradation | 14/684 | 79/8465 | 3.97e-03 | 2.37e-02 | 1.81e-02 | 14 |
hsa0301811 | Breast | Precancer | RNA degradation | 14/684 | 79/8465 | 3.97e-03 | 2.37e-02 | 1.81e-02 | 14 |
hsa0301821 | Breast | IDC | RNA degradation | 16/867 | 79/8465 | 5.65e-03 | 3.13e-02 | 2.34e-02 | 16 |
hsa0301831 | Breast | IDC | RNA degradation | 16/867 | 79/8465 | 5.65e-03 | 3.13e-02 | 2.34e-02 | 16 |
hsa030184 | Breast | DCIS | RNA degradation | 16/846 | 79/8465 | 4.45e-03 | 2.46e-02 | 1.82e-02 | 16 |
hsa030185 | Breast | DCIS | RNA degradation | 16/846 | 79/8465 | 4.45e-03 | 2.46e-02 | 1.82e-02 | 16 |
hsa03015 | Colorectum | AD | mRNA surveillance pathway | 35/2092 | 97/8465 | 7.95e-03 | 3.13e-02 | 2.00e-02 | 35 |
hsa030151 | Colorectum | AD | mRNA surveillance pathway | 35/2092 | 97/8465 | 7.95e-03 | 3.13e-02 | 2.00e-02 | 35 |
hsa030152 | Colorectum | FAP | mRNA surveillance pathway | 26/1404 | 97/8465 | 7.11e-03 | 2.64e-02 | 1.60e-02 | 26 |
hsa030153 | Colorectum | FAP | mRNA surveillance pathway | 26/1404 | 97/8465 | 7.11e-03 | 2.64e-02 | 1.60e-02 | 26 |
hsa030187 | Endometrium | EEC | RNA degradation | 20/1237 | 79/8465 | 8.36e-03 | 3.88e-02 | 2.89e-02 | 20 |
hsa0301812 | Endometrium | EEC | RNA degradation | 20/1237 | 79/8465 | 8.36e-03 | 3.88e-02 | 2.89e-02 | 20 |
hsa0301810 | Esophagus | HGIN | RNA degradation | 27/1383 | 79/8465 | 7.73e-05 | 9.00e-04 | 7.15e-04 | 27 |
hsa0301815 | Esophagus | HGIN | RNA degradation | 27/1383 | 79/8465 | 7.73e-05 | 9.00e-04 | 7.15e-04 | 27 |
hsa0301824 | Esophagus | ESCC | RNA degradation | 62/4205 | 79/8465 | 1.18e-07 | 9.39e-07 | 4.81e-07 | 62 |
hsa0301524 | Esophagus | ESCC | mRNA surveillance pathway | 72/4205 | 97/8465 | 6.12e-07 | 4.10e-06 | 2.10e-06 | 72 |
hsa0301834 | Esophagus | ESCC | RNA degradation | 62/4205 | 79/8465 | 1.18e-07 | 9.39e-07 | 4.81e-07 | 62 |
hsa0301534 | Esophagus | ESCC | mRNA surveillance pathway | 72/4205 | 97/8465 | 6.12e-07 | 4.10e-06 | 2.10e-06 | 72 |
hsa03018 | Liver | Cirrhotic | RNA degradation | 44/2530 | 79/8465 | 1.43e-06 | 1.65e-05 | 1.02e-05 | 44 |
hsa030154 | Liver | Cirrhotic | mRNA surveillance pathway | 46/2530 | 97/8465 | 1.92e-04 | 1.30e-03 | 8.03e-04 | 46 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
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Somatic mutation of malignant transformation related genes |
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Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
PABPC1 | SNV | Missense_Mutation | c.1409N>T | p.Ser470Phe | p.S470F | P11940 | protein_coding | tolerated(0.09) | benign(0.042) | TCGA-A8-A0A7-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PABPC1 | SNV | Missense_Mutation | c.1635N>C | p.Leu545Phe | p.L545F | P11940 | protein_coding | deleterious(0) | probably_damaging(0.98) | TCGA-AN-A0AR-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PABPC1 | deletion | Frame_Shift_Del | novel | c.296delG | p.Gly99AlafsTer60 | p.G99Afs*60 | P11940 | protein_coding | TCGA-EW-A2FV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | docetaxel | SD | ||
PABPC1 | SNV | Missense_Mutation | c.833N>A | p.Arg278His | p.R278H | P11940 | protein_coding | tolerated(0.09) | benign(0.063) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
PABPC1 | SNV | Missense_Mutation | rs750623722 | c.1522N>A | p.Val508Ile | p.V508I | P11940 | protein_coding | tolerated(0.44) | benign(0) | TCGA-C5-A1BE-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
PABPC1 | SNV | Missense_Mutation | novel | c.1457N>T | p.Ser486Leu | p.S486L | P11940 | protein_coding | tolerated(0.11) | benign(0) | TCGA-C5-A1BQ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | CR |
PABPC1 | SNV | Missense_Mutation | novel | c.1457C>T | p.Ser486Leu | p.S486L | P11940 | protein_coding | tolerated(0.11) | benign(0) | TCGA-C5-A3HL-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD |
PABPC1 | SNV | Missense_Mutation | c.833G>A | p.Arg278His | p.R278H | P11940 | protein_coding | tolerated(0.09) | benign(0.063) | TCGA-A6-5661-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PABPC1 | SNV | Missense_Mutation | novel | c.823N>A | p.Glu275Lys | p.E275K | P11940 | protein_coding | deleterious(0.01) | possibly_damaging(0.889) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
PABPC1 | SNV | Missense_Mutation | novel | c.944N>T | p.Ser315Phe | p.S315F | P11940 | protein_coding | deleterious(0) | probably_damaging(0.957) | TCGA-CK-4951-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
26986 | PABPC1 | NA | GNF-PF-4618 | CHEMBL585964 | ||
26986 | PABPC1 | NA | SJ000027778 | CHEMBL592588 | ||
26986 | PABPC1 | NA | DITOLYLGUANIDINE | DITOLYLGUANIDINE | ||
26986 | PABPC1 | NA | SJ000040829 | CHEMBL589711 |
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