Evidence map›Paper›PMID 26000488›Full record

ArticleCell2015

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.

Evan Z Macosko, Anindita Basu, Rahul Satija, James Nemesh, Karthik Shekhar, Melissa Goldman, Itay Tirosh, Allison R Bialas, Nolan Kamitaki, Emily M Martersteck and 6 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4,037 papers.

0numbers the graph read from it
0cells of the map it votes in
4,037citing 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

4,037 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article

3,977 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors.

Evan Z MacoskoDepartment of Genetics, Harvard Medical School, Boston, MA 02115, USA; Stanley Center for Psychiatric Research, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address: emacosko@genetics.med.harvard.edu.
Anindita BasuKlarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138, USA.
Rahul SatijaKlarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; New York Genome Center, New York, NY 10013, USA; Department of Biology, New York University, New York, NY 10003, USA.
James NemeshDepartment of Genetics, Harvard Medical School, Boston, MA 02115, USA; Stanley Center for Psychiatric Research, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Karthik ShekharKlarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Melissa GoldmanDepartment of Genetics, Harvard Medical School, Boston, MA 02115, USA; Stanley Center for Psychiatric Research, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Itay TiroshKlarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Allison R BialasThe Program in Cellular and Molecular Medicine, Children's Hospital Boston, Boston, MA 02115, USA.
Nolan KamitakiDepartment of Genetics, Harvard Medical School, Boston, MA 02115, USA; Stanley Center for Psychiatric Research, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Emily M MartersteckDepartment of Molecular and Cellular Biology and Center for Brain Science, Harvard University, Cambridge, MA 02138, USA.
John J TrombettaKlarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
David A WeitzSchool of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138, USA; Department of Physics, Harvard University, Cambridge, MA 02138, USA.
Joshua R SanesDepartment of Molecular and Cellular Biology and Center for Brain Science, Harvard University, Cambridge, MA 02138, USA.
Alex K ShalekKlarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA 02139, USA; Institute for Medical Engineering and Science and Department of Chemistry, MIT, Cambridge, MA 02139, USA.
Aviv RegevKlarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Department of Biology, MIT, Cambridge, MA 02139, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA.
Steven A McCarrollDepartment of Genetics, Harvard Medical School, Boston, MA 02115, USA; Stanley Center for Psychiatric Research, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address: mccarroll@genetics.med.harvard.edu.

Funding

Pilot & Feasibility ProgramP30DK043351 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI RAYMOND T CHUNG · 1991 to 2026
$35.3M
Center for Cell CircuitsP50HG006193 · NHGRI · BROAD INSTITUTE, INC. · PI REGEV, AVIV · 2011 to 2015
$15.6M
Comprehensive Classification Of Neuronal Subtypes By Single Cell TranscriptomicsU01MH105960 · NIMH · HARVARD UNIVERSITY · PI REGEV, AVIV, SANES, JOSHUA R · 2014 to 2016
$4.5M
Fostering Research Mentorship & Training during Psychiatry Residency SupplementR25MH094612 · NIMH · MASSACHUSETTS GENERAL HOSPITAL · PI FAVA, MAURIZIO, GREENFIELD, SHELLY F. · 2011 to 2022
$2.3M
Training Program in Systemic AutoimmunityT32AI074549 · NIAID · BETH ISRAEL DEACONESS MEDICAL CENTER · PI TSOKOS, GEORGE C · 2008 to 2018
$1.4M
The chromatin regulatory circuitry of bivalent domainsF32HD075541 · NICHD · BROAD INSTITUTE, INC. · PI SATIJA, RAHUL · 2013 to 2014
$99k
Howard Hughes Medical InstituteNHGRI NIH HHS P50 HG006193NIAID NIH HHS T32 AI074549NICHD NIH HHS F32 HD075541NIDDK NIH HHS P30 DK043351NIMH NIH HHS R25 MH094612NIMH NIH HHS R25MH094612NIMH NIH HHS U01 MH105960NIMH NIH HHS U01MH105960
6 · The paper itself

Abstract

Cells, the basic units of biological structure and function, vary broadly in type and state. Single-cell genomics can characterize cell identity and function, but limitations of ease and scale have prevented its broad application. Here we describe Drop-seq, a strategy for quickly profiling thousands of individual cells by separating them into nanoliter-sized aqueous droplets, associating a different barcode with each cell's RNAs, and sequencing them all together. Drop-seq analyzes mRNA transcripts from thousands of individual cells simultaneously while remembering transcripts' cell of origin. We analyzed transcriptomes from 44,808 mouse retinal cells and identified 39 transcriptionally distinct cell populations, creating a molecular atlas of gene expression for known retinal cell classes and novel candidate cell subtypes. Drop-seq will accelerate biological discovery by enabling routine transcriptional profiling at single-cell resolution. VIDEO ABSTRACT.

Indexed as

Genome-Wide Association StudyMicrofluidic Analytical TechniquesSingle-Cell AnalysisAnimalsGene Expression ProfilingHigh-Throughput Nucleotide SequencingMiceRetinaSequence Analysis, RNA

Identifiers

PMID26000488
PMCPMC4481139

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.