(34 nodes) (2022) A human breast cancer-derived xenograft and organoid platform for drug discovery and precision oncology. 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:
	RAD50	DNA repair protein RAD50. (973 aa)
	SIPA1L3	Signal-induced proliferation-associated 1-like protein 3. (377 aa)
	NOTCH2	Neurogenic locus notch homolog protein 2. (1238 aa)
	CDK12	Cyclin-dependent kinase 12 isoform X1. (1491 aa)
	MYH9	Myosin-9; Belongs to the TRAFAC class myosin-kinesin ATPase superfamily. Myosin family. (1845 aa)
	PIK3CA	Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit. (1068 aa)
	FGF3	Fibroblast growth factor; Belongs to the heparin-binding growth factors family. (200 aa)
	TBP	TATA-box-binding protein. (322 aa)
	ADCY9	Adenylate cyclase type 9; Belongs to the adenylyl cyclase class-4/guanylyl cyclase family. (790 aa)
	CHEK2	Serine/threonine-protein kinase Chk2 isoform X1. (544 aa)
	ZNF750	Zinc finger protein 750. (715 aa)
	SNCG	Gamma-synuclein; Belongs to the synuclein family. (130 aa)
	HMBS	Porphobilinogen deaminase isoform X1. (344 aa)
	FANCG	Fanconi anemia group G protein. (626 aa)
	FANCD2	Fanconi anemia group D2 protein. (511 aa)
	TP53	Cellular tumor antigen p53; Acts as a tumor suppressor in many tumor types; induces growth arrest or apoptosis depending on the physiological circumstances and cell type. Involved in cell cycle regulation as a trans-activator that acts to negatively regulate cell division by controlling a set of genes required for this process. One of the activated genes is an inhibitor of cyclin-dependent kinases. Apoptosis induction seems to be mediated either by stimulation of BAX and FAS antigen expression, or by repression of Bcl-2 expression; Belongs to the p53 family. (381 aa)
	JAK2	Tyrosine-protein kinase. (952 aa)
	PDCD1LG2	Programmed cell death 1 ligand 2. (273 aa)
	FANCE	Fanconi anemia group E protein. (468 aa)
	CDK18	Cyclin-dependent kinase 18; Belongs to the protein kinase superfamily. (471 aa)
	RNF111	E3 ubiquitin-protein ligase Arkadia isoform X1. (994 aa)
	MTOR	Serine/threonine-protein kinase mTOR; Belongs to the PI3/PI4-kinase family. (2550 aa)
	RAD51C	DNA repair protein RAD51 homolog 3-like. (371 aa)
	GBA	Glucosylceramidase. (536 aa)
	PTEN	Phosphatase and tensin homolog; Tumor suppressor. Acts as a dual-specificity protein phosphatase, dephosphorylating tyrosine-, serine- and threonine- phosphorylated proteins. Also acts as a lipid phosphatase. Belongs to the PTEN phosphatase protein family. (403 aa)
	RBM10	RNA-binding protein 10 isoform X1. (1071 aa)
	PALB2	Partner and localizer of BRCA2. (1183 aa)
	PGR	Progesterone receptor. (827 aa)
	STX4	Syntaxin-4; Belongs to the syntaxin family. (297 aa)
	ALB	Serum albumin. (608 aa)
	NKX3-1	Homeobox protein Nkx-3.1 isoform X1. (231 aa)
	MUTYH	Adenine DNA glycosylase; Adenine glycosylase active on G-A mispairs. (519 aa)
	BRCA2	Breast cancer type 2 susceptibility protein homolog. (2818 aa)
	FANCL	E3 ubiquitin-protein ligase FANCL isoform X1. (375 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
ALB	BRCA2	A0A2U3XEF9	A0A2U3XC46	Serum albumin.	Breast cancer type 2 susceptibility protein homolog.	0.463
ALB	FGF3	A0A2U3XEF9	A0A2U3YNN2	Serum albumin.	Fibroblast growth factor; Belongs to the heparin-binding growth factors family.	0.661
ALB	JAK2	A0A2U3XEF9	A0A2U3Y110	Serum albumin.	Tyrosine-protein kinase.	0.508
ALB	MTOR	A0A2U3XEF9	A0A2U3XVT2	Serum albumin.	Serine/threonine-protein kinase mTOR; Belongs to the PI3/PI4-kinase family.	0.566
ALB	PGR	A0A2U3XEF9	A0A2U3XGQ6	Serum albumin.	Progesterone receptor.	0.544
ALB	PIK3CA	A0A2U3XEF9	A0A2U3YQH7	Serum albumin.	Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit.	0.474
ALB	PTEN	A0A2U3XEF9	A0A2U3XMX7	Serum albumin.	Phosphatase and tensin homolog; Tumor suppressor. Acts as a dual-specificity protein phosphatase, dephosphorylating tyrosine-, serine- and threonine- phosphorylated proteins. Also acts as a lipid phosphatase. Belongs to the PTEN phosphatase protein family.	0.592
ALB	TBP	A0A2U3XEF9	A0A2U3YLV1	Serum albumin.	TATA-box-binding protein.	0.539
ALB	TP53	A0A2U3XEF9	A0A2U3Y5G3	Serum albumin.	Cellular tumor antigen p53; Acts as a tumor suppressor in many tumor types; induces growth arrest or apoptosis depending on the physiological circumstances and cell type. Involved in cell cycle regulation as a trans-activator that acts to negatively regulate cell division by controlling a set of genes required for this process. One of the activated genes is an inhibitor of cyclin-dependent kinases. Apoptosis induction seems to be mediated either by stimulation of BAX and FAS antigen expression, or by repression of Bcl-2 expression; Belongs to the p53 family.	0.674
BRCA2	ALB	A0A2U3XC46	A0A2U3XEF9	Breast cancer type 2 susceptibility protein homolog.	Serum albumin.	0.463
BRCA2	CDK12	A0A2U3XC46	A0A2U3YTU7	Breast cancer type 2 susceptibility protein homolog.	Cyclin-dependent kinase 12 isoform X1.	0.569
BRCA2	CHEK2	A0A2U3XC46	A0A2U3YD03	Breast cancer type 2 susceptibility protein homolog.	Serine/threonine-protein kinase Chk2 isoform X1.	0.770
BRCA2	FANCD2	A0A2U3XC46	A0A2U3Y5Q8	Breast cancer type 2 susceptibility protein homolog.	Fanconi anemia group D2 protein.	0.996
BRCA2	FANCE	A0A2U3XC46	A0A2U3Y098	Breast cancer type 2 susceptibility protein homolog.	Fanconi anemia group E protein.	0.440
BRCA2	FANCG	A0A2U3XC46	A0A2U3Y6H2	Breast cancer type 2 susceptibility protein homolog.	Fanconi anemia group G protein.	0.747
BRCA2	FANCL	A0A2U3XC46	A0A2U3XC34	Breast cancer type 2 susceptibility protein homolog.	E3 ubiquitin-protein ligase FANCL isoform X1.	0.566
BRCA2	MUTYH	A0A2U3XC46	A0A2U3XC60	Breast cancer type 2 susceptibility protein homolog.	Adenine DNA glycosylase; Adenine glycosylase active on G-A mispairs.	0.430
BRCA2	PALB2	A0A2U3XC46	A0A2U3XHR6	Breast cancer type 2 susceptibility protein homolog.	Partner and localizer of BRCA2.	0.999
BRCA2	PGR	A0A2U3XC46	A0A2U3XGQ6	Breast cancer type 2 susceptibility protein homolog.	Progesterone receptor.	0.526
BRCA2	PIK3CA	A0A2U3XC46	A0A2U3YQH7	Breast cancer type 2 susceptibility protein homolog.	Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit.	0.489