(36 nodes) (2022) Regulation of autophagy fires up the cold tumor microenvironment to improve cancer immunotherapy. network (Leptonychotes weddellii)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:
	CSF3	Granulocyte colony-stimulating factor. (195 aa)
	CD226	CD226 antigen. (336 aa)
	KRAS	GTPase KRas isoform X2. (188 aa)
	IL8	Multifunctional fusion protein; Belongs to the intercrine alpha (chemokine CxC) family. (104 aa)
	CXCL6	C-X-C motif chemokine. (113 aa)
	CALR	Calreticulin. (417 aa)
	IDO1	Indoleamine 2,3-dioxygenase 1. (394 aa)
	PIKFYVE	1-phosphatidylinositol 3-phosphate 5-kinase. (2072 aa)
	IL10	Interleukin-10. (178 aa)
	ATG14	Beclin 1-associated autophagy-related key regulator. (492 aa)
	ATG12	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family. (140 aa)
	JAK2	Tyrosine-protein kinase. (952 aa)
	CD4	T-cell surface glycoprotein CD4. (462 aa)
	MAPK8	Mitogen-activated protein kinase. (427 aa)
	NANOG	Homeobox protein NANOG. (226 aa)
	ATF6	Cyclic AMP-dependent transcription factor ATF-6 alpha. (563 aa)
	JUN	Transcription factor AP-1; Belongs to the bZIP family. (335 aa)
	ATG9A	Autophagy-related protein 9; Involved in autophagy and cytoplasm to vacuole transport (Cvt) vesicle formation. Plays a key role in the organization of the preautophagosomal structure/phagophore assembly site (PAS), the nucleating site for formation of the sequestering vesicle. Belongs to the ATG9 family. (743 aa)
	IFNG	Interferon gamma; Produced by lymphocytes activated by specific antigens or mitogens. IFN-gamma, in addition to having antiviral activity, has important immunoregulatory functions. It is a potent activator of macrophages, it has antiproliferative effects on transformed cells and it can potentiate the antiviral and antitumor effects of the type I interferons. (166 aa)
	STX17	Syntaxin-17; Belongs to the syntaxin family. (302 aa)
	IRF7	Interferon regulatory factor 7. (470 aa)
	ULK2	Serine/threonine-protein kinase ULK2. (1036 aa)
	IL6	Interleukin-6 isoform X1. (212 aa)
	FOXP3	Forkhead box protein P3 isoform X1. (456 aa)
	CXCL10	C-X-C motif chemokine. (98 aa)
	CTLA4	Cytotoxic T-lymphocyte protein 4 isoform X1. (223 aa)
	CD47	Leukocyte surface antigen CD47. (317 aa)
	AMBRA1	Activating molecule in BECN1-regulated autophagy protein 1-like. (299 aa)
	GZMB	Granzyme B; Belongs to the peptidase S1 family. (259 aa)
	TIGIT	T-cell immunoreceptor with Ig and ITIM domains. (167 aa)
	LOC102727675	Decorin; May affect the rate of fibrils formation. (360 aa)
	IL11	Interleukin-11. (120 aa)
	MYD88	Myeloid differentiation primary response protein MyD88; Adapter protein involved in the Toll-like receptor and IL-1 receptor signaling pathway in the innate immune response. (296 aa)
	STAT3	Signal transducer and activator of transcription 3-like. (424 aa)
	NBR1	Next to BRCA1 gene 1 protein. (948 aa)
	CSF2	Granulocyte-macrophage colony-stimulating factor. (153 aa)

Your Current Organism:

Leptonychotes weddellii

NCBI taxonomy Id: 9713
Other names: L. weddellii, Leptonychotes weddelli, Weddell seal

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AMBRA1	ATG12	A0A2U3YWA7	A0A2U3XZP0	Activating molecule in BECN1-regulated autophagy protein 1-like.	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	0.620
AMBRA1	ATG14	A0A2U3YWA7	A0A2U3XYI3	Activating molecule in BECN1-regulated autophagy protein 1-like.	Beclin 1-associated autophagy-related key regulator.	0.930
AMBRA1	ATG9A	A0A2U3YWA7	A0A2U3Y7P8	Activating molecule in BECN1-regulated autophagy protein 1-like.	Autophagy-related protein 9; Involved in autophagy and cytoplasm to vacuole transport (Cvt) vesicle formation. Plays a key role in the organization of the preautophagosomal structure/phagophore assembly site (PAS), the nucleating site for formation of the sequestering vesicle. Belongs to the ATG9 family.	0.404
AMBRA1	ULK2	A0A2U3YWA7	A0A2U3YGE0	Activating molecule in BECN1-regulated autophagy protein 1-like.	Serine/threonine-protein kinase ULK2.	0.733
ATF6	CALR	A0A2U3Y545	A0A2U3XH12	Cyclic AMP-dependent transcription factor ATF-6 alpha.	Calreticulin.	0.593
ATF6	IL6	A0A2U3Y545	A0A2U3YGL7	Cyclic AMP-dependent transcription factor ATF-6 alpha.	Interleukin-6 isoform X1.	0.406
ATG12	AMBRA1	A0A2U3XZP0	A0A2U3YWA7	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	Activating molecule in BECN1-regulated autophagy protein 1-like.	0.620
ATG12	ATG14	A0A2U3XZP0	A0A2U3XYI3	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	Beclin 1-associated autophagy-related key regulator.	0.892
ATG12	ATG9A	A0A2U3XZP0	A0A2U3Y7P8	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	Autophagy-related protein 9; Involved in autophagy and cytoplasm to vacuole transport (Cvt) vesicle formation. Plays a key role in the organization of the preautophagosomal structure/phagophore assembly site (PAS), the nucleating site for formation of the sequestering vesicle. Belongs to the ATG9 family.	0.739
ATG12	NBR1	A0A2U3XZP0	A0A2U3Z4C3	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	Next to BRCA1 gene 1 protein.	0.875
ATG12	STX17	A0A2U3XZP0	A0A2U3YBR1	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	Syntaxin-17; Belongs to the syntaxin family.	0.552
ATG12	ULK2	A0A2U3XZP0	A0A2U3YGE0	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	Serine/threonine-protein kinase ULK2.	0.982
ATG14	AMBRA1	A0A2U3XYI3	A0A2U3YWA7	Beclin 1-associated autophagy-related key regulator.	Activating molecule in BECN1-regulated autophagy protein 1-like.	0.930
ATG14	ATG12	A0A2U3XYI3	A0A2U3XZP0	Beclin 1-associated autophagy-related key regulator.	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	0.892
ATG14	ATG9A	A0A2U3XYI3	A0A2U3Y7P8	Beclin 1-associated autophagy-related key regulator.	Autophagy-related protein 9; Involved in autophagy and cytoplasm to vacuole transport (Cvt) vesicle formation. Plays a key role in the organization of the preautophagosomal structure/phagophore assembly site (PAS), the nucleating site for formation of the sequestering vesicle. Belongs to the ATG9 family.	0.807
ATG14	NBR1	A0A2U3XYI3	A0A2U3Z4C3	Beclin 1-associated autophagy-related key regulator.	Next to BRCA1 gene 1 protein.	0.539
ATG14	STX17	A0A2U3XYI3	A0A2U3YBR1	Beclin 1-associated autophagy-related key regulator.	Syntaxin-17; Belongs to the syntaxin family.	0.969
ATG14	ULK2	A0A2U3XYI3	A0A2U3YGE0	Beclin 1-associated autophagy-related key regulator.	Serine/threonine-protein kinase ULK2.	0.992
ATG9A	AMBRA1	A0A2U3Y7P8	A0A2U3YWA7	Autophagy-related protein 9; Involved in autophagy and cytoplasm to vacuole transport (Cvt) vesicle formation. Plays a key role in the organization of the preautophagosomal structure/phagophore assembly site (PAS), the nucleating site for formation of the sequestering vesicle. Belongs to the ATG9 family.	Activating molecule in BECN1-regulated autophagy protein 1-like.	0.404
ATG9A	ATG12	A0A2U3Y7P8	A0A2U3XZP0	Autophagy-related protein 9; Involved in autophagy and cytoplasm to vacuole transport (Cvt) vesicle formation. Plays a key role in the organization of the preautophagosomal structure/phagophore assembly site (PAS), the nucleating site for formation of the sequestering vesicle. Belongs to the ATG9 family.	Ubiquitin-like protein ATG12; Ubiquitin-like protein involved in autophagic vesicle formation; Belongs to the ATG12 family.	0.739