Evidence map›Paper›PMID 35474899›Full record

ReviewCell reports methods2021

Computational tools for analyzing single-cell data in pluripotent cell differentiation studies.

Jun Ding, Amir Alavi, Mo R Ebrahimkhani, Ziv Bar-Joseph

Abstract readReview
In one paragraph

Review in Cell reports methods, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
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

7 citing papers in PubMed.

  1. Article
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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

4 authors.

Jun DingMeakins-Christie Laboratories, Department of Medicine, McGill University Health Centre, 1001 Decarie Boulevard, Montreal QC H4A 3J1, Canada.
Amir AlaviComputational Biology Department, School of Computer Science, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA.
Mo R EbrahimkhaniDepartment of Pathology, School of Medicine, University of Pittsburgh, 3550 Terrace Street, Pittsburgh, PA 15261, USA.
Ziv Bar-JosephComputational Biology Department, School of Computer Science, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA.

Funding

Pittsburgh Liver Research CenterP30DK120531 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Kari N Nejak-Bowen · 2019 to 2026
$10.9M
Comprehensive, Flexible and FAIR Tools for the HuBMAP HIVEOT2OD026682 · OD · CARNEGIE-MELLON UNIVERSITY · PI PATEN, BENEDICT, RUFFALO, MATTHEW · 2018 to 2021
$3.4M
Recreating Human Developmental Hematopoietic Niches for Ex Vivo Biomanufacturing of Blood Stem CellsR01HL141805 · NHLBI · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Mo Reza Ebrahimkhani · 2019 to 2026
$2.6M
Integration of systems and synthetic biology to advance development of human tissues ex vivoR01EB028532 · NIBIB · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI EBRAHIMKHANI, MO REZA · 2019 to 2022
$1.7M
Reconstructing regulatory networks from time series single cell dataR01GM122096 · NIGMS · CARNEGIE-MELLON UNIVERSITY · PI BAR-JOSEPH, ZIV · 2017 to 2020
$1.4M
NHLBI NIH HHS R01 HL141805NIBIB NIH HHS R01 EB028532NIDDK NIH HHS P30 DK120531NIGMS NIH HHS R01 GM122096NIH HHS OT2 OD026682
6 · The paper itself

Abstract

Single-cell technologies are revolutionizing the ability of researchers to infer the causes and results of biological processes. Although several studies of pluripotent cell differentiation have recently utilized single-cell sequencing data, other aspects related to the optimization of differentiation protocols, their validation, robustness, and usage are still not taking full advantage of single-cell technologies. In this review, we focus on computational approaches for the analysis of single-cell omics and imaging data and discuss their use to address many of the major challenges involved in the development, validation, and use of cells obtained from pluripotent cell differentiation.

Indexed as

Pluripotent Stem CellsCell Differentiationcomputational approachespluripotent cell differentiationprotocol optimizationsingle cellstem cell applications

Identifiers

PMID35474899
PMCPMC9017169

What OpenQuestion holds

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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.