Human Gene Set: HEBERT_MATRISOME_TNBC_LUNG_METASTASIS


Standard name HEBERT_MATRISOME_TNBC_LUNG_METASTASIS
Systematic name M48001
Brief description Matrisome proteins found in significantly higher abundance in TNBC lung metastasis niche compared to TNBC bone, liver and brain metastatic niches.
Full description or abstract We have previously developed methods for enriching tissue samples for their ECM protein content by taking advantage of the relative insolubility of the ECM, and we have used these techniques in conjunction with mass spectrometry-based proteomics to profile the matrisome, the complete collection of both core ECM and ECM-associated proteins, in several different cancers. Here we define and compare the ECM components of metastatic niches and how they differ among the specific secondary sites common in TNBC. For this purpose, we use as a model the MDA-MB-231 human TNBC cell line, originally derived from a patient pleural effusion (24), which is capable of metastasizing to the brain, lungs, liver and bone marrow in mouse xenografts. We identify which ECM proteins are commonly elevated at multiple different metastatic sites, and which are preferentially elevated in particular sites. We investigate how these specific ECM proteins, as well as the tumor matrix overall, are differentially produced by the tumor and stromal cells; in this paper, we use stromal to include all cells in the tumor that are not tumor cells. These comparisons did not simply identify the most elevated proteins in each tissue, but rather the proteins most significantly different in abundance in one tissue relative to all others. Separate analyses were conducted for tumor-cell-derived (human) and stroma-derived (mouse) proteins. In this study, we performed an unbiased, quantitative mass spectrometric survey of ECM proteins present in MDA-MB-231 breast cancer xenograft metastases to the brain, lungs, liver and bone marrow. This gene set lists the matrisome proteins found in significantly higher abundance in TNBC lung metastasis niche compared to TNBC bone, liver and brain metastatic niches.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 32019869   Authors: Hebert JD,Myers SA,Naba A,Abbruzzese G,Lamar JM,Carr SA,Hynes RO
Exact source NIHMS1558781-supplement-4 Figure 4A & 5A
Related gene sets (show 8 additional gene sets from the source publication)

(show 25 gene sets from the same authors)
External links https://doi.org/10.1158/0008-5472.CAN-19-2961
Filtered by similarity ?
Source species Homo sapiens
Contributed by Alexandra Naba (University of Illinois Chicago)
Source platform or
identifier namespace		 HUMAN_GENE_SYMBOL
Dataset references  
Download gene set format: grp | gmt | xml | json | TSV metadata
Compute overlaps ? (show collections to investigate for overlap with this gene set)
Compendia expression profiles ? NG-CHM interactive heatmaps
(Please note that clustering takes a few seconds)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)

Legacy heatmaps (PNG)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 23 genes
Gene families ? Categorize these 23 genes by gene family
Show members (show 23 source identifiers mapped to 23 genes)
Version history 2024.1.Hs: Renamed from HEBERT_MATRISOME_TNBC_LUNG_METASTASIS_TUMOR_CELL_DERIVED.

See MSigDB license terms here. Please note that certain gene sets have special access terms.