Evidence map›Paper›PMID 32404140›Full record

ArticleBMC cancer2020

Gene networks and expression quantitative trait loci associated with adjuvant chemotherapy response in high-grade serous ovarian cancer.

Jihoon Choi, Danai G Topouza, Anastasiya Tarnouskaya, Sean Nesdoly, Madhuri Koti, Qing Ling Duan

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

Article in BMC cancer, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
1.8field-weighted citation impact, top 16% 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

8 citing papers in PubMed, 14 citations in OpenAlex.

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  7. Characterization of SynonymousFrontiers in oncology · 2021
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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

6 authors at 1 institution in 1 country.

Jihoon ChoiDepartment of Biomedical and Molecular Sciences, Queen's University, Kingston, Ontario, Canada.
Danai G TopouzaDepartment of Biomedical and Molecular Sciences, Queen's University, Kingston, Ontario, Canada.
Anastasiya TarnouskayaSchool of Computing, Queen's University, Kingston, Ontario, Canada.
Sean NesdolySchool of Computing, Queen's University, Kingston, Ontario, Canada.
Madhuri KotiDepartment of Biomedical and Molecular Sciences, Queen's University, Kingston, Ontario, Canada.
Qing Ling DuanDepartment of Biomedical and Molecular Sciences, Queen's University, Kingston, Ontario, Canada. qingling.duan@queensu.ca.
Queen's University · CA

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundA major impediment in the treatment of ovarian cancer is the relapse of chemotherapy-resistant tumors, which occurs in approximately 25% of patients. A better understanding of the biological mechanisms underlying chemotherapy resistance will improve treatment efficacy through genetic testing and novel therapies.

methodsUsing data from high-grade serous ovarian carcinoma (HGSOC) patients in the Cancer Genome Atlas (TCGA), we classified those who remained progression-free for 12 months following platinum-taxane combination chemotherapy as "chemo-sensitive" (N = 160) and those who had recurrence within 6 months as "chemo-resistant" (N = 110). Univariate and multivariate analysis of expression microarray data were used to identify differentially expressed genes and co-expression gene networks associated with chemotherapy response. Moreover, we integrated genomics data to determine expression quantitative trait loci (eQTL).

resultsDifferential expression of the Valosin-containing protein (VCP) gene and five co-expression gene networks were significantly associated with chemotherapy response in HGSOC. VCP and the most significant co-expression network module contribute to protein processing in the endoplasmic reticulum, which has been implicated in chemotherapy response. Both univariate and multivariate analysis findings were successfully replicated in an independent ovarian cancer cohort. Furthermore, we identified 192 cis-eQTLs associated with the expression of network genes and 4 cis-eQTLs associated with BRCA2 expression.

conclusionThis study implicates both known and novel genes as well as biological processes underlying response to platinum-taxane-based chemotherapy among HGSOC patients.

Indexed as

Gene Regulatory NetworksQuantitative Trait LociAntineoplastic Combined Chemotherapy ProtocolsBiomarkers, TumorChemotherapy, AdjuvantCystadenocarcinoma, SerousDrug Resistance, NeoplasmFemaleGene Expression ProfilingGene Expression Regulation, NeoplasticHumansNeoplasm GradingOvarian NeoplasmsBiomarkers, TumorChemotherapy resistanceCo-expression network analysisDifferential gene expression analysisExpression quantitative trait lociGenome-wide association studyGenomicsHigh-grade serous ovarian carcinomaThe Cancer Genome AtlasTranscriptomicsValosin containing protein

Identifiers

PMID32404140
PMCPMC7218510
OpenAlexW3027249669

What OpenQuestion holds

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LicenceCC BY
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Registered trials

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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.