Evidence map›Paper›PMID 29541388›Full record

ArticleOncotarget2018

Single-cell RNA sequencing reveals gene expression signatures of breast cancer-associated endothelial cells.

Zhengda Sun, Chih-Yang Wang, Devon A Lawson, Serena Kwek, Hugo Gonzalez Velozo, Mark Owyong, Ming-Derg Lai, Lawrence Fong, Mark Wilson, Hua Su and 2 more

Open access · diamondAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Oncotarget, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
35citing papers in PubMed, 1 pooled it
2.0field-weighted citation impact, top 13% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

35 citing papers in PubMed, 1 synthesis or guideline pooled it, 60 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors at 3 institutions in 2 countries.

Zhengda SunDivision of Neurointerventional Radiology, Department of Radiology and Biomedical Imaging, University of California, San Francisco, CA 94143, USA.
Chih-Yang WangDepartment of Anatomy, University of California, San Francisco, CA 94143, USA.
Devon A LawsonDepartment of Physiology and Biophysics, University of California, Irvine, CA 92697, USA.
Serena KwekDivision of Hematology and Oncology, Department of Medicine, University of California, San Francisco, CA 94143, USA.
Hugo Gonzalez VelozoDepartment of Anatomy, University of California, San Francisco, CA 94143, USA.
Mark OwyongDepartment of Anatomy, University of California, San Francisco, CA 94143, USA.
Ming-Derg LaiDepartment of Biochemistry and Molecular Biology, Institute of Basic Medical Sciences, College of Medicine, National Cheng Kung University, Tainan 70101, Taiwan.
Lawrence FongDivision of Hematology and Oncology, Department of Medicine, University of California, San Francisco, CA 94143, USA.
Mark WilsonDivision of Neurointerventional Radiology, Department of Radiology and Biomedical Imaging, University of California, San Francisco, CA 94143, USA.
Hua SuCenter for Cerebrovascular Research, Department of Anesthesia and Perioperative Care, University of California, San Francisco, CA 94143, USA.
Zena WerbDepartment of Anatomy, University of California, San Francisco, CA 94143, USA.
Daniel L CookeDivision of Neurointerventional Radiology, Department of Radiology and Biomedical Imaging, University of California, San Francisco, CA 94143, USA.
University of California, San Francisco · USNational Cheng Kung University · TWUniversity of California, Irvine · US

Funding

Role of Metalloproteinases in Mammary Gland RemodelingR01CA057621 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI WERB, ZENA · 1993 to 2017
$9.0M
Uncover the Pathogenesis of Brain Arteriovenous MalformationR01NS027713 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SU, HUA · 1990 to 2023
$8.6M
Integrative approach to heterogeneity in breast cancer metastasisU01CA199315 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI GOGA, ANDREI, SPELLMAN, PAUL T. · 2016 to 2020
$3.2M
Cell type-specific influences on HHT pathogenesisR01HL122774 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SU, HUA · 2015 to 2018
$1.6M
Soluble VEGF receptor therapy for brain arteriovenous malformationR21NS083788 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SU, HUA · 2014 to 2015
$790k
Single-cell analysis of intratumor heterogeneity in metastasisK22CA190511 · NCI · UNIVERSITY OF CALIFORNIA-IRVINE · PI LAWSON, DEVON A. · 2016 to 2018
$486k
NCI NIH HHS K22 CA190511NCI NIH HHS R01 CA057621NCI NIH HHS U01 CA199315NHLBI NIH HHS R01 HL122774NINDS NIH HHS R01 NS027713NINDS NIH HHS R21 NS083788
6 · The paper itself

Abstract

Tumor endothelial cells (TEC) play an indispensible role in tumor growth and metastasis although much of the detailed mechanism still remains elusive. In this study we characterized and compared the global gene expression profiles of TECs and control ECs isolated from human breast cancerous tissues and reduction mammoplasty tissues respectively by single cell RNA sequencing (scRNA-seq). Based on the qualified scRNA-seq libraries that we made, we found that 1302 genes were differentially expressed between these two EC phenotypes. Both principal component analysis (PCA) and heat map-based hierarchical clustering separated the cancerous versus control ECs as two distinctive clusters, and MetaCore disease biomarker analysis indicated that these differentially expressed genes are highly correlated with breast neoplasm diseases. Gene Set Enrichment Analysis software (GSEA) enriched these genes to extracellular matrix (ECM) signal pathways and highlighted 127 ECM-associated genes. External validation verified some of these ECM-associated genes are not only generally overexpressed in various cancer tissues but also specifically overexpressed in colorectal cancer ECs and lymphoma ECs. In conclusion, our data demonstrated that ECM-associated genes play pivotal roles in breast cancer EC biology and some of them could serve as potential TEC biomarkers for various cancers.

Indexed as

breast cancerendothelial cellextracellular matrixsingle-cell RNA sequencing

Identifiers

PMID29541388
PMCPMC5834272
OpenAlexW2779910850

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.