Evidence map›Paper›PMID 21179090›Full record

ArticleNature2011

The developmental transcriptome of Drosophila melanogaster.

Brenton R Graveley, Angela N Brooks, Joseph W Carlson, Michael O Duff, Jane M Landolin, Li Yang, Carlo G Artieri, Marijke J van Baren, Nathan Boley, Benjamin W Booth and 37 more

Abstract read
In one paragraph

Article in Nature, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1,005 papers.

0numbers the graph read from it
0cells of the map it votes in
1,005citing papers in PubMed
42.9field-weighted citation impact, top 1% 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

1,005 citing papers in PubMed, 1,585 citations in OpenAlex.

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945 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

47 authors at 13 institutions in 1 country.

Brenton R GraveleyDepartment of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, Connecticut 06030-6403, USA. graveley@neuron.uchc.edu
Angela N Brooks
Joseph W Carlson
Michael O Duff
Jane M Landolin
Li Yang
Carlo G Artieri
Marijke J van Baren
Nathan Boley
Benjamin W Booth
James B Brown
Lucy Cherbas
Carrie A Davis
Alex Dobin
Renhua Li
Wei Lin
John H Malone
Nicolas R Mattiuzzo
David Miller
David Sturgill
Brian B Tuch
Chris Zaleski
Dayu Zhang
Marco Blanchette
Sandrine Dudoit
Brian Eads
Richard E Green
Ann Hammonds
Lichun Jiang
Phil Kapranov
Laura Langton
Norbert Perrimon
Jeremy E Sandler
Kenneth H Wan
Aarron Willingham
Yu Zhang
Yi Zou
Justen Andrews
Peter J Bickel
Steven E Brenner
Michael R Brent
Peter Cherbas
Thomas R Gingeras
Roger A Hoskins
Thomas C Kaufman
Brian Oliver
Susan E Celniker
Indiana University Bloomington · USLawrence Berkeley National Laboratory · USUniversity of California, Berkeley · USCold Spring Harbor Laboratory · USNational Institutes of Health · USUConn Health · USWashington University in St. Louis · USNational Institute of Diabetes and Digestive and Kidney Diseases · USAffymax (United States) · USHarvard University · USLife Systems (United States) · USUniversity of California, Santa Cruz · USUniversity of Kansas Medical Center · US

Funding

Drosophila Functional GenomicsZIADK015600 · NIDDK · NATIONAL INSTITUTE OF DIABETES AND DIGESTIVE AND KIDNEY DISEASES · PI OLIVER, BRIAN · 2009 to 2025
$23.9M
Comprehensive characterization of the Drosophila transcriptomeU01HG004271 · NHGRI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI CELNIKER, SUSAN E · 2007 to 2011
$18.4M
Howard Hughes Medical InstituteIntramural NIH HHS ZIA DK015600NHGRI NIH HHS U01 HG004271NHLBI NIH HHS U01 HB004271
6 · The paper itself

Abstract

Drosophila melanogaster is one of the most well studied genetic model organisms; nonetheless, its genome still contains unannotated coding and non-coding genes, transcripts, exons and RNA editing sites. Full discovery and annotation are pre-requisites for understanding how the regulation of transcription, splicing and RNA editing directs the development of this complex organism. Here we used RNA-Seq, tiling microarrays and cDNA sequencing to explore the transcriptome in 30 distinct developmental stages. We identified 111,195 new elements, including thousands of genes, coding and non-coding transcripts, exons, splicing and editing events, and inferred protein isoforms that previously eluded discovery using established experimental, prediction and conservation-based approaches. These data substantially expand the number of known transcribed elements in the Drosophila genome and provide a high-resolution view of transcriptome dynamics throughout development.

Indexed as

Gene Expression ProfilingAlternative SplicingAnimalsBase SequenceDrosophila melanogasterDrosophila ProteinsExonsFemaleGene Expression Regulation, DevelopmentalGenes, InsectGenome, InsectMaleMicroRNAsOligonucleotide Array Sequence AnalysisProtein IsoformsRNA EditingDrosophila ProteinsMicroRNAsProtein IsoformsRNA, MessengerRNA, Small Untranslated

Identifiers

PMID21179090
PMCPMC3075879
OpenAlexW2167364244

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.