Evidence map›Paper›PMID 26435392›Full record

ArticleJournal of proteome research2015

Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues.

Julia Fangfei Yan, Hoguen Kim, Seul-Ki Jeong, Hyoung-Joo Lee, Manveen K Sethi, Ling Y Lee, Ronald C Beavis, Hogune Im, Michael P Snyder, Matan Hofree and 5 more

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

Article in Journal of proteome research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.7field-weighted citation impact, top 25% 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

4 citing papers in PubMed, 6 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. DNA methyltransferase 1, 3a, and 3b expression in hepatitis C associated human hepatocellular carcinoma and their clinicopathological association.Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine · 2016
    Article
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

15 authors at 7 institutions in 4 countries.

Julia Fangfei YanBarnett Institute and Department of Chemistry and Chemical Biology, Northeastern University , 360 Huntington Avenue, Boston, Massachusetts 02115, United States.
Hoguen KimYonsei University College of Medicine, Yonsei University , 50-1 Yonsei-Ro, Seodaemun-gu, Seoul 120-752, Korea.
Seul-Ki JeongYonsei Proteome Research Center, Yonsei University , 262 Seongsanno, Seodaemun-gu, Seoul 120-749, Korea.
Hyoung-Joo LeeYonsei Proteome Research Center, Yonsei University , 262 Seongsanno, Seodaemun-gu, Seoul 120-749, Korea.
Manveen K SethiDepartment of Chemistry and Biomolecular Sciences, Macquarie University , Sydney, New South Wales 2109, Australia.
Ling Y LeeDepartment of Chemistry and Biomolecular Sciences, Macquarie University , Sydney, New South Wales 2109, Australia.
Ronald C BeavisDepartment of Biochemistry and Medical Genetics, Faculty of Health Sciences, University of Manitoba , 745 Bannatyne Avenue, Winnipeg, Manitoba R3E 0J9, Canada.
Hogune ImDepartment of Genetics, Stanford University , Stanford, California 94305, United States.
Michael P SnyderDepartment of Genetics, Stanford University , Stanford, California 94305, United States.
Matan HofreeDepartment of Computer Science and Engineering, University of California, San Diego , 9500 Gilman Drive, La Jolla, California 92093, United States.
Trey IdekerProgram in Bioinformatics, University of California, San Diego , 9500 Gilman Drive, La Jolla, California 92093, United States.
Shiaw-Lin WuBarnett Institute and Department of Chemistry and Chemical Biology, Northeastern University , 360 Huntington Avenue, Boston, Massachusetts 02115, United States.
Young-Ki PaikYonsei University College of Medicine, Yonsei University , 50-1 Yonsei-Ro, Seodaemun-gu, Seoul 120-752, Korea.
Susan FanayanDepartment of Biomedical Sciences, Macquarie University , Sydney, New South Wales 2109, Australia.
William S HancockBarnett Institute and Department of Chemistry and Chemical Biology, Northeastern University , 360 Huntington Avenue, Boston, Massachusetts 02115, United States.
Macquarie University · AUNortheastern University · USYonsei University · KRStanford University · USUniversity of California, San Diego · USUniversity of Manitoba · CAYonsei Proteome Research Center · KR

Funding

A Systems Approach to Mapping the DNA Damage ResponseR01ES014811 · NIEHS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI IDEKER, TREY · 2005 to 2021
$8.6M
NIEHS NIH HHS ES014811NIEHS NIH HHS R01 ES014811
6 · The paper itself

Abstract

V-erb-b2 erythroblastic leukemia viral oncogene homologue 2, known as ERBB2, is an important oncogene in the development of certain cancers. It can form a heterodimer with other epidermal growth factor receptor family members and activate kinase-mediated downstream signaling pathways. ERBB2 gene is located on chromosome 17 and is amplified in a subset of cancers, such as breast, gastric, and colon cancer. Of particular interest to the Chromosome-Centric Human Proteome Project (C-HPP) initiative is the amplification mechanism that typically results in overexpression of a set of genes adjacent to ERBB2, which provides evidence of a linkage between gene location and expression. In this report we studied patient samples from ERBB2-positive together with adjacent control nontumor tissues. In addition, non-ERBB2-expressing patient samples were selected as comparison to study the effect of expression of this oncogene. We detected 196 proteins in ERBB2-positive patient tumor samples that had minimal overlap (29 proteins) with the non-ERBB2 tumor samples. Interaction and pathway analysis identified extracellular signal regulated kinase (ERK) cascade and actin polymerization and actinmyosin assembly contraction as pathways of importance in ERBB2+ and ERBB2- gastric cancer samples, respectively. The raw data files are deposited at ProteomeXchange (identifier: PXD002674) as well as GPMDB.

Indexed as

Case-Control StudiesCell Line, TumorErb-b2 Receptor Tyrosine KinasesGene Expression ProfilingHumansImmunohistochemistryIn Situ Hybridization, FluorescenceStomach NeoplasmsERBB2 protein, humanErb-b2 Receptor Tyrosine KinasesChromosome-centric Human Proteome ProjectEGFRERBB2gastric cancer patient tissuesGRB2RNA-Seq

Identifiers

PMID26435392
PMCPMC5706558
OpenAlexW2205724834

What OpenQuestion holds

Textmetadata
LicenceTDM
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.