Evidence map›Paper›PMID 34927097›Full record

ArticleSTAR protocols2021

Preparation of mouse pancreatic tumor for single-cell RNA sequencing and analysis of the data.

Aizhan Surumbayeva, Michael Kotliar, Linara Gabitova-Cornell, Andrey Kartashov, Suraj Peri, Nathan Salomonis, Artem Barski, Igor Astsaturov

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

Article in STAR protocols, 2021. 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
0.4field-weighted citation impact, top 40% 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, 7 citations in OpenAlex.

  1. Article
  2. Development and optimization of Eva1 (Journal for immunotherapy of cancer · 2025
    Article
  3. Article
  4. 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

8 authors at 2 institutions in 1 country.

Aizhan SurumbayevaThe Marvin & Concetta Greenberg Pancreatic Cancer Institute, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.
Michael KotliarDivision of Allergy and Immunology, University of Cincinnati, Cincinnati, OH 45221, USA.
Linara Gabitova-CornellThe Marvin & Concetta Greenberg Pancreatic Cancer Institute, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.
Andrey KartashovDivision of Allergy and Immunology, University of Cincinnati, Cincinnati, OH 45221, USA.
Suraj PeriBiostatistics and Bioinformatics Facility, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.
Nathan SalomonisDivision of Biomedical Informatics, University of Cincinnati, Cincinnati, OH 45221, USA.
Artem BarskiDivision of Allergy and Immunology, University of Cincinnati, Cincinnati, OH 45221, USA.
Igor AstsaturovThe Marvin & Concetta Greenberg Pancreatic Cancer Institute, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.
Cincinnati Children's Hospital Medical Center · USFox Chase Cancer Center · US

Funding

WORD PROCESSING CENTER--COREP30CA006927 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI Margaret von Mehren · 1985 to 2026
$138.8M
TRAINING PROGRAM IN CANCER RESEARCHT32CA009035 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI CHERNOFF, JONATHAN · 1985 to 2020
$10.5M
Synergistic targeting of cholesterol metabolism and EGFR signaling in cancerR01CA188430 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI ASTSATUROV, IGOR · 2014 to 2018
$1.9M
Targeting Sterol Gene SC4MOL and EGFR as Synergistic Anti-Cancer StrategyK22CA160725 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI ASTSATUROV, IGOR · 2011 to 2013
$592k
Oncogenic Synapses: cell-cell contacts enabling trogocytic-based metabolic interactions between pancreatic cancer and fibroblastic stromal cellsR21CA231252 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI ASTSATUROV, IGOR, CUKIERMAN, EDNA · 2019 to 2020
$437k
SciDAP: a next generation universal platform for collaborative data analysisR41HG011219 · NHGRI · DATIRIUM, LLC · PI BARSKI, ARTEM, KARTASHOV, ANDREY · 2020 to 2021
$427k
Regulation of EGFR by SC4MOL- and NSDHL-Dependent TraffickingR21CA164205 · NCI · RESEARCH INST OF FOX CHASE CAN CTR · PI ASTSATUROV, IGOR · 2012 to 2013
$413k
NCI NIH HHS K22 CA160725NCI NIH HHS P30 CA006927NCI NIH HHS R01 CA188430NCI NIH HHS R21 CA164205NCI NIH HHS R21 CA231252NCI NIH HHS T32 CA009035NHGRI NIH HHS R41 HG011219
6 · The paper itself

Abstract

Preparation of single-cell suspension from primary tumor tissue can provide a valuable resource for functional, genetic, proteomic, and tumor microenvironment studies. Here, we describe an effective protocol for mouse pancreatic tumor dissociation with further processing of tumor suspension for single-cell RNA sequencing analysis of cellular populations. We further provide an outline of the bioinformatics processing of the data and clustering of heterogeneous cellular populations comprising pancreatic tumors using Common Workflow Language (CWL) pipelines within user-friendly Scientific Data Analysis Platform (https://SciDAP.com). For complete details on the use and execution of this protocol, please refer to Gabitova-Cornell et al. (2020).

Indexed as

Pancreatic NeoplasmsAnimalsComputational BiologyFemaleMaleMicePancreasSequence Analysis, RNASingle-Cell AnalysisSoftwareBioinformaticsCancerCell BiologyCell isolationMolecular BiologyRNAseqSequence analysisSingle Cell

Identifiers

PMID34927097
PMCPMC8649395
OpenAlexW4200150269

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.