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: LYN

Gene summary for LYN

Gene summary.

Gene information	Species	Human
	Gene symbol	LYN
	Gene ID	4067
	Gene name	LYN proto-oncogene, Src family tyrosine kinase
	Gene Alias	JTK8
	Cytomap	8q12.1
	Gene Type	protein-coding
	GO ID	GO:0000165
	UniProtAcc	P07948

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
4067	LYN	CA_HPV_1	Human	Cervix	CC	1.07e-10	3.97e-01	0.0264
4067	LYN	CCI_2	Human	Cervix	CC	4.28e-03	9.41e-01	0.5249
4067	LYN	CCI_3	Human	Cervix	CC	6.57e-04	8.77e-01	0.516
4067	LYN	L1	Human	Cervix	CC	1.26e-04	-3.28e-01	0.0802
4067	LYN	LZE4T	Human	Esophagus	ESCC	2.98e-02	2.81e-02	0.0811
4067	LYN	LZE8T	Human	Esophagus	ESCC	3.77e-03	1.94e-01	0.067
4067	LYN	LZE20T	Human	Esophagus	ESCC	2.22e-04	3.47e-01	0.0662
4067	LYN	LZE22D1	Human	Esophagus	HGIN	9.11e-04	1.29e-01	0.0595
4067	LYN	LZE24T	Human	Esophagus	ESCC	1.99e-06	1.13e-01	0.0596
4067	LYN	LZE21T	Human	Esophagus	ESCC	4.98e-02	2.72e-01	0.0655
4067	LYN	P1T-E	Human	Esophagus	ESCC	7.66e-11	1.20e+00	0.0875
4067	LYN	P4T-E	Human	Esophagus	ESCC	6.61e-05	1.05e-01	0.1323
4067	LYN	P8T-E	Human	Esophagus	ESCC	5.18e-25	5.58e-01	0.0889
4067	LYN	P9T-E	Human	Esophagus	ESCC	3.38e-05	5.03e-02	0.1131
4067	LYN	P11T-E	Human	Esophagus	ESCC	1.62e-02	3.82e-01	0.1426
4067	LYN	P15T-E	Human	Esophagus	ESCC	6.13e-03	2.85e-01	0.1149
4067	LYN	P17T-E	Human	Esophagus	ESCC	3.28e-05	4.24e-01	0.1278
4067	LYN	P21T-E	Human	Esophagus	ESCC	1.59e-24	6.96e-01	0.1617
4067	LYN	P22T-E	Human	Esophagus	ESCC	3.03e-09	7.31e-02	0.1236
4067	LYN	P23T-E	Human	Esophagus	ESCC	2.15e-41	1.54e+00	0.108

Page: 1 2 3 4 5

Transcriptomic changes along malignancy continuum.

Tissue	Expression Dynamics	Abbreviation
Cervix		CC: Cervix cancer
		HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions
		N_HPV: HPV-infected normal cervix
Esophagus		ESCC: Esophageal squamous cell carcinoma
		HGIN: High-grade intraepithelial neoplasias
		LGIN: Low-grade intraepithelial neoplasias
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

∗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:004206010	Cervix	CC	wound healing	109/2311	422/18723	1.84e-14	1.57e-11	109
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:002240710	Cervix	CC	regulation of cell-cell adhesion	103/2311	448/18723	1.78e-10	2.87e-08	103
GO:004578510	Cervix	CC	positive regulation of cell adhesion	101/2311	437/18723	1.96e-10	3.08e-08	101
GO:00421108	Cervix	CC	T cell activation	107/2311	487/18723	1.24e-09	1.46e-07	107
GO:00508638	Cervix	CC	regulation of T cell activation	80/2311	329/18723	1.28e-09	1.47e-07	80
GO:007149610	Cervix	CC	cellular response to external stimulus	78/2311	320/18723	1.82e-09	1.98e-07	78
GO:00512359	Cervix	CC	maintenance of location	78/2311	327/18723	5.18e-09	4.92e-07	78
GO:00321035	Cervix	CC	positive regulation of response to external stimulus	95/2311	427/18723	5.44e-09	5.03e-07	95
GO:001095210	Cervix	CC	positive regulation of peptidase activity	54/2311	197/18723	8.06e-09	6.99e-07	54
GO:00071598	Cervix	CC	leukocyte cell-cell adhesion	85/2311	371/18723	8.27e-09	7.07e-07	85
GO:003367410	Cervix	CC	positive regulation of kinase activity	101/2311	467/18723	8.66e-09	7.22e-07	101
GO:00026837	Cervix	CC	negative regulation of immune system process	94/2311	434/18723	2.63e-08	1.87e-06	94
GO:00603267	Cervix	CC	cell chemotaxis	73/2311	310/18723	2.82e-08	1.96e-06	73
GO:19030378	Cervix	CC	regulation of leukocyte cell-cell adhesion	77/2311	336/18723	4.08e-08	2.54e-06	77
GO:005165110	Cervix	CC	maintenance of location in cell	55/2311	214/18723	6.63e-08	3.85e-06	55
GO:00975298	Cervix	CC	myeloid leukocyte migration	56/2311	220/18723	7.21e-08	4.15e-06	56
GO:001095010	Cervix	CC	positive regulation of endopeptidase activity	48/2311	179/18723	1.12e-07	5.71e-06	48

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

Enriched KEGG pathways.

Pathway ID	Tissue	Disease Stage	Description	Gene Ratio	Bg Ratio	pvalue	p.adjust	qvalue	Count
hsa0466610	Liver	HCC	Fc gamma R-mediated phagocytosis	58/4020	97/8465	9.65e-03	2.52e-02	1.40e-02	58
hsa0541742	Liver	HCC	Lipid and atherosclerosis	118/4020	215/8465	1.66e-02	3.92e-02	2.18e-02	118
hsa046112	Liver	HCC	Platelet activation	71/4020	124/8465	1.77e-02	4.15e-02	2.31e-02	71
hsa0516931	Liver	HCC	Epstein-Barr virus infection	128/4020	202/8465	3.17e-06	2.79e-05	1.55e-05	128
hsa051203	Liver	HCC	Epithelial cell signaling in Helicobacter pylori infection	50/4020	70/8465	3.96e-05	2.16e-04	1.20e-04	50
hsa052033	Liver	HCC	Viral carcinogenesis	117/4020	204/8465	2.68e-03	8.98e-03	5.00e-03	117
hsa0516731	Liver	HCC	Kaposi sarcoma-associated herpesvirus infection	111/4020	194/8465	3.78e-03	1.16e-02	6.45e-03	111
hsa0466611	Liver	HCC	Fc gamma R-mediated phagocytosis	58/4020	97/8465	9.65e-03	2.52e-02	1.40e-02	58
hsa0541752	Liver	HCC	Lipid and atherosclerosis	118/4020	215/8465	1.66e-02	3.92e-02	2.18e-02	118
hsa0461111	Liver	HCC	Platelet activation	71/4020	124/8465	1.77e-02	4.15e-02	2.31e-02	71
hsa0516716	Lung	IAC	Kaposi sarcoma-associated herpesvirus infection	46/1053	194/8465	8.58e-06	2.14e-04	1.42e-04	46
hsa0541716	Lung	IAC	Lipid and atherosclerosis	48/1053	215/8465	3.02e-05	6.14e-04	4.08e-04	48
hsa051205	Lung	IAC	Epithelial cell signaling in Helicobacter pylori infection	20/1053	70/8465	2.31e-04	2.54e-03	1.68e-03	20
hsa052034	Lung	IAC	Viral carcinogenesis	43/1053	204/8465	3.02e-04	3.07e-03	2.04e-03	43
hsa0516916	Lung	IAC	Epstein-Barr virus infection	40/1053	202/8465	1.72e-03	9.66e-03	6.41e-03	40
hsa046114	Lung	IAC	Platelet activation	27/1053	124/8465	2.34e-03	1.23e-02	8.14e-03	27
hsa0516717	Lung	IAC	Kaposi sarcoma-associated herpesvirus infection	46/1053	194/8465	8.58e-06	2.14e-04	1.42e-04	46
hsa0541717	Lung	IAC	Lipid and atherosclerosis	48/1053	215/8465	3.02e-05	6.14e-04	4.08e-04	48
hsa0512012	Lung	IAC	Epithelial cell signaling in Helicobacter pylori infection	20/1053	70/8465	2.31e-04	2.54e-03	1.68e-03	20
hsa0520311	Lung	IAC	Viral carcinogenesis	43/1053	204/8465	3.02e-04	3.07e-03	2.04e-03	43

Page: 1 2 3 4 5 6 7

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

LYN

SNV

Missense_Mutation

c.475N>A

p.Glu159Lys

p.E159K

P07948

protein_coding

deleterious(0.01)

probably_damaging(0.987)

TCGA-A1-A0SO-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Chemotherapy

LYN

SNV

Missense_Mutation

c.627N>T

p.Lys209Asn

p.K209N

P07948

protein_coding

tolerated(0.16)

benign(0.056)

TCGA-A2-A0CT-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Chemotherapy

cytoxan

LYN

SNV

Missense_Mutation

c.57N>C

p.Leu19Phe

p.L19F

P07948

protein_coding

tolerated(0.72)

benign(0.013)

TCGA-AC-A23H-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Unknown

LYN

SNV

Missense_Mutation

novel

c.1096N>T

p.Arg366Trp

p.R366W

P07948

protein_coding

deleterious(0.01)

probably_damaging(1)

TCGA-AC-A2FM-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Unknown

LYN

SNV

Missense_Mutation

novel

c.1442N>C

p.Lys481Thr

p.K481T

P07948

protein_coding

deleterious(0.01)

benign(0.432)

TCGA-AN-A046-01

Breast

breast invasive carcinoma

Female

>=65

I/II

Unknown

LYN

SNV

Missense_Mutation

c.1508N>A

p.Ala503Asp

p.A503D

P07948

protein_coding

deleterious(0)

probably_damaging(0.949)

TCGA-B6-A0I9-01

Breast

breast invasive carcinoma

Female

<65

III/IV

Unknown

LYN

SNV

Missense_Mutation

c.1252N>A

p.Gly418Arg

p.G418R

P07948

protein_coding

deleterious(0)

probably_damaging(0.999)

TCGA-E2-A155-01

Breast

breast invasive carcinoma

Female

<65

I/II

Chemotherapy

cytoxan

LYN

SNV

Missense_Mutation

novel

c.905N>C

p.Leu302Pro

p.L302P

P07948

protein_coding

deleterious(0)

probably_damaging(1)

TCGA-2W-A8YY-01

Cervix

cervical & endocervical cancer

Female

<65

I/II

Chemotherapy

cisplatin

LYN

SNV

Missense_Mutation

c.20A>T

p.Lys7Ile

p.K7I

P07948

protein_coding

deleterious(0.01)

possibly_damaging(0.482)

TCGA-DS-A1OC-01

Cervix

cervical & endocervical cancer

Female

<65

I/II

Chemotherapy

gemcitabine

LYN

SNV

Missense_Mutation

c.907G>A

p.Val303Met

p.V303M

P07948

protein_coding

deleterious(0)

probably_damaging(0.945)

TCGA-MA-AA42-01

Cervix

cervical & endocervical cancer

Female

>=65

I/II

Unknown

Page: 1 2 3 4 5 6 7

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
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE		CYC-116	CYC-116
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE		ILORASERTIB	ILORASERTIB
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE		SORAFENIB	SORAFENIB
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE	inhibitor	178102666
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE		GW459057A	GW459057A	16890436
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE	inhibitor	NINTEDANIB	NINTEDANIB
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE		NILOTINIB	NILOTINIB	18191450
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE	inhibitor	MASITINIB	MASITINIB
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE		Bafetinib	BAFETINIB
4067	LYN	DRUGGABLE GENOME, KINASE, TYROSINE KINASE, ENZYME, CLINICALLY ACTIONABLE, DRUG RESISTANCE	inhibitor	178103494	IBRUTINIB

Page: 1 2 3 4 5 6 7