Evidence map›Paper›PMID 37191792›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2023

Integration of Single-Cell RNA-Sequencing and Network Analysis to Investigate Mechanisms of Drug Resistance.

Stephanie The, Patricia M Schnepp, Greg Shelley, Jill M Keller, Arvind Rao, Evan T Keller

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

Article in Methods in molecular biology (Clifton, N.J.), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
3.3field-weighted citation impact, top 8% 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

2 citing papers in PubMed, 4 citations in OpenAlex.

  1. Review
  2. Review
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 2 institutions in 1 country.

Stephanie TheBiointerfaces Institute, University of Michigan, Ann Arbor, MI, USA.
Patricia M SchneppBiointerfaces Institute, University of Michigan, Ann Arbor, MI, USA.
Greg ShelleyBiointerfaces Institute, University of Michigan, Ann Arbor, MI, USA.
Jill M KellerBiointerfaces Institute, University of Michigan, Ann Arbor, MI, USA.
Arvind RaoSingle Cell Spatial Analysis Program, University of Michigan, Ann Arbor, MI, USA.
Evan T KellerBiointerfaces Institute, University of Michigan, Ann Arbor, MI, USA. etkeller@umich.edu.
University of Michigan–Ann Arbor · USBioSurfaces (United States) · US

Funding

XenograftP30CA046592 · NCI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI THEODORE S LAWRENCE · 1988 to 2026
$178.2M
Tumor microvesicle-mediated modulation of the bone microenvironmentP01CA093900 · NCI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI PIENTA, KENNETH J. · 2004 to 2024
$29.6M
NCI NIH HHS P01 CA093900NCI NIH HHS P30 CA046592
6 · The paper itself

Abstract

Innate resistance and therapeutic-driven development of resistance to anticancer drugs is a common complication of cancer therapy. Understanding mechanisms of drug resistance can lead to development of alternative therapies. One strategy is to subject drug-sensitive and drug-resistant variants to single-cell RNA-seq (scRNA-seq) and to subject the scRNA-seq data to network analysis to identify pathways associated with drug resistance. This protocol describes a computational analysis pipeline to study drug resistance by subjecting scRNA-seq expression data to Passing Attributes between Networks for Data Assimilation (PANDA), an integrative network analysis tool that incorporates protein-protein interactions (PPI) and transcription factor (TF)-binding motifs.

Indexed as

Gene Expression ProfilingRNASequence Analysis, RNASingle-Cell AnalysisRNAConnectivity map analysisData integrationDrug resistance networkGene set enrichment analysisPassing Attributes between Networks for Data AssimilationProtein–protein interactionsSingle-cell RNA-sequencingTranscription factor-binding motifs

Identifiers

PMID37191792
PMCPMC10600594
OpenAlexW4376641810

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.