Schematic overview of the cellular and molecular mechanisms involved in the cancer progression, including the proposed cellular and molecular mechanisms in cancer cells trajectory. AT1: alveolar type 1 cells; AT2: alveolar type 2 cells; AAH: atypical adenomatous hyperplasia; AIS: adenocarcinoma in situ; MIA: minimally invasive adenocarcinoma; IA: invasive adenocarcinoma; EMT: epithelial-mesenchymal transition

Home

Download

Statistics

Help

Contact

	Gene summary
	Malignant transformation analysis
	Malignant transformation related pathway analysis
	Cell-cell communication analysis
	Single-cell gene regulatory network inference analysis
	Somatic mutation of malignant transformation related genes
	Related drugs of malignant transformation related genes

Gene: TPM1

Gene summary for TPM1

Gene summary.

Gene information	Species	Human
	Gene symbol	TPM1
	Gene ID	7168
	Gene name	tropomyosin 1
	Gene Alias	C15orf13
	Cytomap	15q22.2
	Gene Type	protein-coding
	GO ID	GO:0000302
	UniProtAcc	A0A0K0K1I0

Top

Malignant transformation analysis

Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells

Malignant transformation involving gene list.

Entrez ID	Symbol	Replicates	Species	Organ	Tissue	Adj P-value	Log2FC	Malignancy
7168	TPM1	GSM4909277	Human	Breast	Precancer	2.13e-02	3.42e-01	0.0177
7168	TPM1	GSM4909282	Human	Breast	IDC	2.46e-10	2.54e-01	-0.0288
7168	TPM1	GSM4909285	Human	Breast	IDC	1.70e-30	-7.30e-01	0.21
7168	TPM1	GSM4909286	Human	Breast	IDC	1.77e-52	-1.02e+00	0.1081
7168	TPM1	GSM4909291	Human	Breast	IDC	5.85e-05	-5.00e-01	0.1753
7168	TPM1	GSM4909293	Human	Breast	IDC	5.70e-16	-4.70e-01	0.1581
7168	TPM1	GSM4909294	Human	Breast	IDC	5.92e-14	9.12e-02	0.2022
7168	TPM1	GSM4909296	Human	Breast	IDC	2.79e-12	-2.97e-01	0.1524
7168	TPM1	GSM4909297	Human	Breast	IDC	1.02e-30	-6.30e-01	0.1517
7168	TPM1	GSM4909298	Human	Breast	IDC	6.79e-29	-7.11e-01	0.1551
7168	TPM1	GSM4909302	Human	Breast	IDC	5.12e-10	2.44e-01	0.1545
7168	TPM1	GSM4909307	Human	Breast	IDC	2.28e-06	2.47e-01	0.1569
7168	TPM1	GSM4909308	Human	Breast	IDC	1.25e-20	4.36e-01	0.158
7168	TPM1	GSM4909311	Human	Breast	IDC	6.00e-48	-5.31e-01	0.1534
7168	TPM1	GSM4909312	Human	Breast	IDC	1.25e-07	-1.90e-01	0.1552
7168	TPM1	GSM4909315	Human	Breast	IDC	4.66e-12	2.76e-01	0.21
7168	TPM1	GSM4909316	Human	Breast	IDC	4.82e-04	1.29e-01	0.21
7168	TPM1	GSM4909319	Human	Breast	IDC	6.97e-68	-1.09e-01	0.1563
7168	TPM1	GSM4909320	Human	Breast	IDC	9.05e-06	-4.25e-01	0.1575
7168	TPM1	GSM4909321	Human	Breast	IDC	2.85e-35	-7.80e-01	0.1559

Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14

Transcriptomic changes along malignancy continuum.

Tissue	Expression Dynamics	Abbreviation
Breast		IDC: Invasive ductal carcinoma
		DCIS: Ductal carcinoma in situ
		Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers
Colorectum (GSE201348)		FAP: Familial adenomatous polyposis
		CRC: Colorectal cancer
Colorectum (HTA11)		AD: Adenomas
		SER: Sessile serrated lesions
		MSI-H: Microsatellite-high colorectal cancer
		MSS: Microsatellite stable colorectal cancer
Endometrium		AEH: Atypical endometrial hyperplasia
		EEC: Endometrioid Cancer
Esophagus		ESCC: Esophageal squamous cell carcinoma
		HGIN: High-grade intraepithelial neoplasias
		LGIN: Low-grade intraepithelial neoplasias
GC		CAG: Chronic atrophic gastritis
		CAG with IM: Chronic atrophic gastritis with intestinal metaplasia
		CSG: Chronic superficial gastritis
		GC: Gastric cancer
		SIM: Severe intestinal metaplasia
		WIM: Wild intestinal metaplasia
Liver		HCC: Hepatocellular carcinoma
		NAFLD: Non-alcoholic fatty liver disease
Lung		AAH: Atypical adenomatous hyperplasia
		AIS: Adenocarcinoma in situ
		IAC: Invasive lung adenocarcinoma
		MIA: Minimally invasive adenocarcinoma
Oral Cavity		EOLP: Erosive Oral lichen planus
		LP: leukoplakia
		NEOLP: Non-erosive oral lichen planus
		OSCC: Oral squamous cell carcinoma
Prostate		BPH: Benign Prostatic Hyperplasia
Skin		AK: Actinic keratosis
		cSCC: Cutaneous squamous cell carcinoma
		SCCIS:squamous cell carcinoma in situ
Thyroid		ATC: Anaplastic thyroid cancer
		HT: Hashimoto's thyroiditis
		PTC: Papillary thyroid cancer

∗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.

Top

Malignant transformation related pathway analysis

Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer

Figure of enriched GO biological processes.

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).

Page: 1 2 3 4 5 6 7 8 9

Enriched GO biological processes.

GO ID	Tissue	Disease Stage	Description	Gene Ratio	Bg Ratio	pvalue	p.adjust	Count
GO:003459913	Lung	AIS	cellular response to oxidative stress	49/1849	288/18723	1.10e-04	2.57e-03	49
GO:003004812	Lung	AIS	actin filament-based movement	25/1849	127/18723	5.99e-04	9.14e-03	25
GO:00426921	Lung	AIS	muscle cell differentiation	58/1849	384/18723	7.00e-04	1.03e-02	58
GO:003152912	Lung	AIS	ruffle organization	14/1849	56/18723	8.61e-04	1.17e-02	14
GO:00400131	Lung	AIS	negative regulation of locomotion	57/1849	391/18723	1.80e-03	2.03e-02	57
GO:00605371	Lung	AIS	muscle tissue development	58/1849	403/18723	2.22e-03	2.37e-02	58
GO:190290513	Lung	AIS	positive regulation of supramolecular fiber organization	34/1849	209/18723	2.50e-03	2.57e-02	34
GO:00149091	Lung	AIS	smooth muscle cell migration	19/1849	97/18723	2.74e-03	2.75e-02	19
GO:00512711	Lung	AIS	negative regulation of cellular component movement	53/1849	367/18723	3.11e-03	3.00e-02	53
GO:20001461	Lung	AIS	negative regulation of cell motility	52/1849	359/18723	3.18e-03	3.05e-02	52
GO:000301211	Lung	AIS	muscle system process	63/1849	452/18723	3.18e-03	3.05e-02	63
GO:00303361	Lung	AIS	negative regulation of cell migration	50/1849	344/18723	3.51e-03	3.33e-02	50
GO:000030213	Lung	AIS	response to reactive oxygen species	35/1849	222/18723	3.69e-03	3.46e-02	35
GO:00109271	Lung	AIS	cellular component assembly involved in morphogenesis	20/1849	107/18723	3.79e-03	3.52e-02	20
GO:00511461	Lung	AIS	striated muscle cell differentiation	42/1849	283/18723	4.88e-03	4.24e-02	42
GO:0014812	Lung	AIS	muscle cell migration	20/1849	110/18723	5.24e-03	4.49e-02	20
GO:00149101	Lung	AIS	regulation of smooth muscle cell migration	17/1849	89/18723	5.80e-03	4.83e-02	17
GO:000697920	Oral cavity	OSCC	response to oxidative stress	273/7305	446/18723	8.35e-22	1.65e-19	273
GO:006219720	Oral cavity	OSCC	cellular response to chemical stress	204/7305	337/18723	6.89e-16	5.19e-14	204
GO:000030220	Oral cavity	OSCC	response to reactive oxygen species	143/7305	222/18723	1.32e-14	7.88e-13	143

Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50

Enriched KEGG pathways.

Pathway ID	Tissue	Disease Stage	Description	Gene Ratio	Bg Ratio	pvalue	p.adjust	qvalue	Count
hsa0426022	Breast	IDC	Cardiac muscle contraction	23/867	87/8465	1.39e-05	1.61e-04	1.21e-04	23
hsa0426032	Breast	IDC	Cardiac muscle contraction	23/867	87/8465	1.39e-05	1.61e-04	1.21e-04	23
hsa0426042	Breast	DCIS	Cardiac muscle contraction	22/846	87/8465	3.08e-05	3.43e-04	2.53e-04	22
hsa0426052	Breast	DCIS	Cardiac muscle contraction	22/846	87/8465	3.08e-05	3.43e-04	2.53e-04	22
hsa04260	Colorectum	AD	Cardiac muscle contraction	32/2092	87/8465	7.92e-03	3.13e-02	2.00e-02	32
hsa042601	Colorectum	AD	Cardiac muscle contraction	32/2092	87/8465	7.92e-03	3.13e-02	2.00e-02	32
hsa042602	Colorectum	SER	Cardiac muscle contraction	31/1580	87/8465	1.30e-04	1.30e-03	9.47e-04	31
hsa042603	Colorectum	SER	Cardiac muscle contraction	31/1580	87/8465	1.30e-04	1.30e-03	9.47e-04	31
hsa042604	Colorectum	MSS	Cardiac muscle contraction	31/1875	87/8465	2.73e-03	1.32e-02	8.12e-03	31
hsa042605	Colorectum	MSS	Cardiac muscle contraction	31/1875	87/8465	2.73e-03	1.32e-02	8.12e-03	31
hsa04261	Colorectum	FAP	Adrenergic signaling in cardiomyocytes	38/1404	154/8465	6.16e-03	2.34e-02	1.42e-02	38
hsa042608	Colorectum	FAP	Cardiac muscle contraction	24/1404	87/8465	6.49e-03	2.43e-02	1.48e-02	24
hsa042611	Colorectum	FAP	Adrenergic signaling in cardiomyocytes	38/1404	154/8465	6.16e-03	2.34e-02	1.42e-02	38
hsa042609	Colorectum	FAP	Cardiac muscle contraction	24/1404	87/8465	6.49e-03	2.43e-02	1.48e-02	24
hsa0426020	Endometrium	AEH	Cardiac muscle contraction	27/1197	87/8465	3.93e-05	3.99e-04	2.92e-04	27
hsa048144	Endometrium	AEH	Motor proteins	42/1197	193/8465	2.41e-03	1.42e-02	1.04e-02	42
hsa04260110	Endometrium	AEH	Cardiac muscle contraction	27/1197	87/8465	3.93e-05	3.99e-04	2.92e-04	27
hsa0481411	Endometrium	AEH	Motor proteins	42/1197	193/8465	2.41e-03	1.42e-02	1.04e-02	42
hsa0426023	Endometrium	EEC	Cardiac muscle contraction	28/1237	87/8465	2.49e-05	2.73e-04	2.03e-04	28
hsa048142	Endometrium	EEC	Motor proteins	42/1237	193/8465	4.43e-03	2.39e-02	1.78e-02	42

Page: 1 2 3

Top

Cell-cell communication analysis

Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states

Ligand

Receptor

LRpair

Pathway

Tissue

Disease Stage

Page: 1

Top

Single-cell gene regulatory network inference analysis

Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states

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.

Page: 1

Top

Somatic mutation of malignant transformation related genes

Annotation of somatic variants for genes involved in malignant transformation

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

TPM1

SNV

Missense_Mutation

c.463G>C

p.Ala155Pro

p.A155P

P09493

protein_coding

deleterious(0)

probably_damaging(0.998)

TCGA-A8-A08F-01

Breast

breast invasive carcinoma

Female

<65

III/IV

Chemotherapy

5-fluorouracil

TPM1

SNV

Missense_Mutation

c.499N>G

p.Arg167Gly

p.R167G

P09493

protein_coding

deleterious(0.04)

benign(0.38)

TCGA-A8-A08Z-01

Breast

breast invasive carcinoma

Female

>=65

III/IV

Unknown

TPM1

SNV

Missense_Mutation

novel

c.355N>T

p.Ala119Ser

p.A119S

P09493

protein_coding

deleterious(0.04)

possibly_damaging(0.513)

TCGA-BH-A0C0-01

Breast

breast invasive carcinoma

Female

<65

I/II

Chemotherapy

carboplatin

TPM1

SNV

Missense_Mutation

c.708G>C

p.Glu236Asp

p.E236D

P09493

protein_coding

deleterious(0.01)

benign(0.424)

TCGA-C8-A26Y-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Unknown

TPM1

insertion

Nonsense_Mutation

novel

c.355_356insTTTAAGTT

p.Ala119ValfsTer2

p.A119Vfs*2

P09493

protein_coding

TCGA-A2-A0CU-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Hormone Therapy

tamoxiphen

TPM1

insertion

Nonsense_Mutation

novel

c.356_357insCTTTGTAAGGATCCTATGATAAAGTGGCTTGA

p.Ala120PhefsTer6

p.A120Ffs*6

P09493

protein_coding

TCGA-A2-A0CU-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Hormone Therapy

tamoxiphen

TPM1

deletion

Frame_Shift_Del

c.180delC

p.Ser61LeufsTer25

p.S61Lfs*25

P09493

protein_coding

TCGA-BH-A0B1-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Chemotherapy

adriamycin

TPM1

insertion

Frame_Shift_Ins

novel

c.356_357insCAACTCTGTATTGTGGATCCATA

p.Ala120AsnfsTer16

p.A120Nfs*16

P09493

protein_coding

TCGA-BH-A0C0-01

Breast

breast invasive carcinoma

Female

<65

I/II

Chemotherapy

carboplatin

TPM1

SNV

Missense_Mutation

novel

c.849N>A

p.Asn283Lys

p.N283K

P09493

protein_coding

tolerated(0.11)

benign(0.026)

TCGA-AA-3877-01

Colorectum

colon adenocarcinoma

Female

>=65

I/II

Unknown

TPM1

SNV

Missense_Mutation

novel

c.544N>T

p.Arg182Trp

p.R182W

P09493

protein_coding

deleterious(0.01)

probably_damaging(0.932)

TCGA-AA-3984-01

Colorectum

colon adenocarcinoma

Female

<65

I/II

Unknown

Page: 1 2 3

Top

Related drugs of malignant transformation related genes

Identification of chemicals and drugs interact with genes involved in malignant transfromation

(DGIdb 4.0)

Entrez ID

Symbol

Category

Interaction Types

Drug Claim Name

Drug Name

PMIDs

Page: 1