Evidence map›Paper›PMID 28818938›Full record

ArticleScience (New York, N.Y.)2017

Comprehensive single-cell transcriptional profiling of a multicellular organism.

Junyue Cao, Jonathan S Packer, Vijay Ramani, Darren A Cusanovich, Chau Huynh, Riza Daza, Xiaojie Qiu, Choli Lee, Scott N Furlan, Frank J Steemers and 4 more

Abstract read
In one paragraph

Article in Science (New York, N.Y.), 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 827 papers.

0numbers the graph read from it
0cells of the map it votes in
827citing 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

827 citing papers in PubMed.

  1. eIF5A and polyamines restrict mRNA levels in response to ribosome stalls.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  2. An atlas of thebioRxiv : the preprint server for biology · 2026
    Article
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  10. bioRxiv : the preprint server for biology · 2026
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767 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

14 authors.

Junyue CaoDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.ORCID 0000-0003-4097-489X
Jonathan S PackerDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.ORCID 0000-0003-4025-0007
Vijay RamaniDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.ORCID 0000-0003-3345-5960
Darren A CusanovichDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.ORCID 0000-0001-6889-0095
Chau HuynhDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.
Riza DazaDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.
Xiaojie QiuDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.
Choli LeeDepartment of Genome Sciences, University of Washington, Seattle, WA, USA.ORCID 0000-0002-8901-1835
Scott N FurlanBen Towne Center for Childhood Cancer Research, Seattle Children's Research Institute, Seattle, WA, USA.
Frank J SteemersAdvanced Research Group, Illumina, San Diego, CA, USA.
Andrew AdeyDepartment of Molecular & Medical Genetics, Oregon Health & Science University, Portland, OR, USA.ORCID 0000-0001-7648-8717
Robert H WaterstonDepartment of Genome Sciences, University of Washington, Seattle, WA, USA. watersto@uw.edu coletrap@uw.edu shendure@uw.edu.ORCID 0000-0001-5956-5215
Cole TrapnellDepartment of Genome Sciences, University of Washington, Seattle, WA, USA. watersto@uw.edu coletrap@uw.edu shendure@uw.edu.ORCID 0000-0002-8105-4347
Jay ShendureDepartment of Genome Sciences, University of Washington, Seattle, WA, USA. watersto@uw.edu coletrap@uw.edu shendure@uw.edu.ORCID 0000-0002-1516-1865

Funding

Resource ProjectU41HG007355 · NHGRI · UNIVERSITY OF WASHINGTON · PI WATERSTON, ROBERT H · 2013 to 2021
$20.8M
University of Washington Center for Nuclear Organization and FunctionU54DK107979 · NIDDK · UNIVERSITY OF WASHINGTON · PI NOBLE, WILLIAM STAFFORD, SHENDURE, JAY ASHOK · 2015 to 2019
$11.8M
CARDIOVASCULAR RESEARCH TRAINING PROGRAMT32HL007828 · NHLBI · UNIVERSITY OF WASHINGTON · PI Francis Kim, Farid Moussavi-Harami · 1997 to 2026
$10.2M
Automated single-cell expression analysis in C. elegansR01GM072675 · NIGMS · UNIVERSITY OF WASHINGTON · PI WATERSTON, ROBERT H · 2005 to 2017
$7.1M
Interpreting Genetic Variants of Uncertain SignificanceDP1HG007811 · NHGRI · UNIVERSITY OF WASHINGTON · PI SHENDURE, JAY ASHOK · 2013 to 2017
$3.8M
Massively Parallel Contiguity MappingR01HG006283 · NHGRI · UNIVERSITY OF WASHINGTON · PI SHENDURE, JAY ASHOK · 2011 to 2016
$3.4M
Charting the regulatory topography of the cell differentiation landscape with single-cell RNA-Seq.DP2HD088158 · NICHD · UNIVERSITY OF WASHINGTON · PI TRAPNELL, BRUCE COLSTON · 2015 to 2015
$2.3M
Defining the epigentic landscape at single cell resolutionR35GM124704 · NIGMS · OREGON HEALTH & SCIENCE UNIVERSITY · PI ADEY, ANDREW · 2017 to 2021
$2.3M
Howard Hughes Medical InstituteNHGRI NIH HHS DP1 HG007811NHGRI NIH HHS R01 HG006283NHGRI NIH HHS U41 HG007355NHLBI NIH HHS T32 HL007828NICHD NIH HHS DP2 HD088158NIDDK NIH HHS U54 DK107979NIGMS NIH HHS R01 GM072675NIGMS NIH HHS R35 GM124704
6 · The paper itself

Abstract

To resolve cellular heterogeneity, we developed a combinatorial indexing strategy to profile the transcriptomes of single cells or nuclei, termed sci-RNA-seq (single-cell combinatorial indexing RNA sequencing). We applied sci-RNA-seq to profile nearly 50,000 cells from the nematode

Indexed as

TranscriptomeAnimalsCaenorhabditis elegansCell NucleusChromatin ImmunoprecipitationHEK293 CellsHumansLarvaMiceNeuronsNIH 3T3 CellsRNASequence Analysis, RNASingle-Cell AnalysisTranscription FactorsRNATranscription Factors

Identifiers

PMID28818938
PMCPMC5894354

What OpenQuestion holds

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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.