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Gene: PICALM |
Gene summary for PICALM |
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Gene information | Species | Human | Gene symbol | PICALM | Gene ID | 8301 |
Gene name | phosphatidylinositol binding clathrin assembly protein | |
Gene Alias | CALM | |
Cytomap | 11q14.2 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | A0A024R5L7 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
8301 | PICALM | GSM5353227_PA_PR5199-193K_Pool_1_2_3_S55_L002 | Human | Prostate | Tumor | 1.51e-02 | 3.34e-01 | 0.1602 |
8301 | PICALM | GSM5353237_PA_PR5251_T2_S8_L001 | Human | Prostate | Tumor | 1.83e-02 | 6.40e-01 | 0.1622 |
8301 | PICALM | GSM5353243_PA_PR5261_T1_S23_L002 | Human | Prostate | Tumor | 4.32e-04 | 2.45e-01 | 0.1545 |
8301 | PICALM | GSM5353244_PA_PR5261_T2_S24_L002 | Human | Prostate | Tumor | 4.03e-05 | 3.56e-01 | 0.1569 |
8301 | PICALM | P1_S1_AK | Human | Skin | AK | 7.81e-12 | 5.25e-01 | -0.3399 |
8301 | PICALM | P2_S3_AK | Human | Skin | AK | 1.92e-02 | 3.80e-01 | -0.3287 |
8301 | PICALM | P2_S4_SCCIS | Human | Skin | SCCIS | 2.11e-05 | 3.66e-01 | -0.3043 |
8301 | PICALM | P3_S6_AK | Human | Skin | AK | 8.91e-06 | 3.62e-01 | -0.3256 |
8301 | PICALM | P4_S8_cSCC | Human | Skin | cSCC | 5.08e-13 | 3.61e-01 | -0.3095 |
8301 | PICALM | P5_S10_cSCC | Human | Skin | cSCC | 1.19e-06 | 2.78e-01 | -0.299 |
8301 | PICALM | P1_cSCC | Human | Skin | cSCC | 1.22e-11 | 5.81e-01 | 0.0292 |
8301 | PICALM | P2_cSCC | Human | Skin | cSCC | 5.95e-07 | 2.99e-01 | -0.024 |
8301 | PICALM | P4_cSCC | Human | Skin | cSCC | 9.55e-06 | 4.34e-01 | -0.00290000000000005 |
8301 | PICALM | P10_cSCC | Human | Skin | cSCC | 8.74e-29 | 8.35e-01 | 0.1017 |
8301 | PICALM | male-WTA | Human | Thyroid | PTC | 9.88e-42 | 2.00e-01 | 0.1037 |
8301 | PICALM | PTC01 | Human | Thyroid | PTC | 6.79e-07 | -3.48e-02 | 0.1899 |
8301 | PICALM | PTC04 | Human | Thyroid | PTC | 1.24e-26 | 1.99e-01 | 0.1927 |
8301 | PICALM | PTC05 | Human | Thyroid | PTC | 1.15e-15 | 3.98e-01 | 0.2065 |
8301 | PICALM | PTC06 | Human | Thyroid | PTC | 1.79e-22 | 3.85e-01 | 0.2057 |
8301 | PICALM | PTC07 | Human | Thyroid | PTC | 1.77e-25 | 1.26e-01 | 0.2044 |
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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 |
Colorectum | AD | ![]() |
Colorectum | SER | ![]() |
Colorectum | MSS | ![]() |
Colorectum | MSI-H | ![]() |
Colorectum | FAP | ![]() |
∗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:005254710 | Cervix | CC | regulation of peptidase activity | 112/2311 | 461/18723 | 6.70e-13 | 3.08e-10 | 112 |
GO:004586210 | Cervix | CC | positive regulation of proteolysis | 95/2311 | 372/18723 | 1.84e-12 | 6.86e-10 | 95 |
GO:005254810 | Cervix | CC | regulation of endopeptidase activity | 103/2311 | 432/18723 | 1.89e-11 | 5.14e-09 | 103 |
GO:007265910 | Cervix | CC | protein localization to plasma membrane | 73/2311 | 284/18723 | 4.95e-10 | 6.73e-08 | 73 |
GO:001095210 | Cervix | CC | positive regulation of peptidase activity | 54/2311 | 197/18723 | 8.06e-09 | 6.99e-07 | 54 |
GO:19907788 | Cervix | CC | protein localization to cell periphery | 78/2311 | 333/18723 | 1.22e-08 | 9.73e-07 | 78 |
GO:004586110 | Cervix | CC | negative regulation of proteolysis | 80/2311 | 351/18723 | 2.88e-08 | 1.98e-06 | 80 |
GO:00430877 | Cervix | CC | regulation of GTPase activity | 79/2311 | 348/18723 | 4.21e-08 | 2.60e-06 | 79 |
GO:001095010 | Cervix | CC | positive regulation of endopeptidase activity | 48/2311 | 179/18723 | 1.12e-07 | 5.71e-06 | 48 |
GO:00075689 | Cervix | CC | aging | 75/2311 | 339/18723 | 2.75e-07 | 1.13e-05 | 75 |
GO:00513469 | Cervix | CC | negative regulation of hydrolase activity | 81/2311 | 379/18723 | 4.27e-07 | 1.67e-05 | 81 |
GO:00163587 | Cervix | CC | dendrite development | 58/2311 | 243/18723 | 4.52e-07 | 1.76e-05 | 58 |
GO:00104669 | Cervix | CC | negative regulation of peptidase activity | 60/2311 | 262/18723 | 1.27e-06 | 4.34e-05 | 60 |
GO:001095110 | Cervix | CC | negative regulation of endopeptidase activity | 56/2311 | 252/18723 | 7.43e-06 | 1.74e-04 | 56 |
GO:003425010 | Cervix | CC | positive regulation of cellular amide metabolic process | 40/2311 | 162/18723 | 1.11e-05 | 2.41e-04 | 40 |
GO:00325359 | Cervix | CC | regulation of cellular component size | 76/2311 | 383/18723 | 1.66e-05 | 3.21e-04 | 76 |
GO:19052455 | Cervix | CC | regulation of aspartic-type peptidase activity | 8/2311 | 12/18723 | 1.66e-05 | 3.21e-04 | 8 |
GO:00615647 | Cervix | CC | axon development | 89/2311 | 467/18723 | 1.71e-05 | 3.27e-04 | 89 |
GO:000690010 | Cervix | CC | vesicle budding from membrane | 20/2311 | 61/18723 | 2.50e-05 | 4.28e-04 | 20 |
GO:00068987 | Cervix | CC | receptor-mediated endocytosis | 53/2311 | 244/18723 | 2.52e-05 | 4.29e-04 | 53 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
PICALM | SNV | Missense_Mutation | c.1625C>T | p.Ser542Leu | p.S542L | Q13492 | protein_coding | deleterious(0.02) | possibly_damaging(0.471) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
PICALM | SNV | Missense_Mutation | novel | c.1612N>A | p.Asp538Asn | p.D538N | Q13492 | protein_coding | tolerated(1) | benign(0.015) | TCGA-BH-A0B6-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PICALM | SNV | Missense_Mutation | c.886N>A | p.Ala296Thr | p.A296T | Q13492 | protein_coding | tolerated(0.05) | benign(0.063) | TCGA-C8-A8HP-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | 5-fluorouracil | CR | |
PICALM | insertion | Nonsense_Mutation | novel | c.1866_1867insTAAGAAAGAT | p.Met623Ter | p.M623* | Q13492 | protein_coding | TCGA-AC-A3QQ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
PICALM | SNV | Missense_Mutation | novel | c.887N>T | p.Ala296Val | p.A296V | Q13492 | protein_coding | deleterious(0.02) | possibly_damaging(0.719) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
PICALM | SNV | Missense_Mutation | c.59C>T | p.Ser20Phe | p.S20F | Q13492 | protein_coding | deleterious(0) | possibly_damaging(0.686) | TCGA-EA-A3HT-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD | |
PICALM | SNV | Missense_Mutation | c.632A>G | p.Tyr211Cys | p.Y211C | Q13492 | protein_coding | deleterious(0) | probably_damaging(0.92) | TCGA-JX-A3Q0-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unknown | Unknown | SD | |
PICALM | SNV | Missense_Mutation | rs377101068 | c.1777N>G | p.Met593Val | p.M593V | Q13492 | protein_coding | tolerated(0.34) | benign(0.019) | TCGA-MA-AA42-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD |
PICALM | SNV | Missense_Mutation | rs760482423 | c.1228N>G | p.Thr410Ala | p.T410A | Q13492 | protein_coding | tolerated(0.76) | benign(0.003) | TCGA-A6-5665-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
PICALM | SNV | Missense_Mutation | novel | c.523A>G | p.Met175Val | p.M175V | Q13492 | protein_coding | tolerated(0.08) | benign(0.106) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | 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 |
8301 | PICALM | CLINICALLY ACTIONABLE, CELL SURFACE | calcium channel blockers | 24192120 |
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