Evidence map›Paper›PMID 21552244›Full record

ArticleNature biotechnology2011

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.

Pelin Yilmaz, Renzo Kottmann, Dawn Field, Rob Knight, James R Cole, Linda Amaral-Zettler, Jack A Gilbert, Ilene Karsch-Mizrachi, Anjanette Johnston, Guy Cochrane and 88 more

Abstract read
In one paragraph

Article in Nature biotechnology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 404 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
404citing papers in PubMed, 2 pooled it
–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

404 citing papers in PubMed, 2 syntheses or guidelines pooled it.

  1. Pooled it
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  18. Fungal ecology in the age of 'omics.The New phytologist · 2026
    Review
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344 more citing papers are in PubMed but not listed here.

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

98 authors.

Pelin YilmazMicrobial Genomics and Bioinformatics Group, Max Planck Institute for Marine Microbiology, Bremen, Germany.
Renzo Kottmann
Dawn Field
Rob Knight
James R Cole
Linda Amaral-Zettler
Jack A Gilbert
Ilene Karsch-Mizrachi
Anjanette Johnston
Guy Cochrane
Robert Vaughan
Christopher Hunter
Joonhong Park
Norman Morrison
Philippe Rocca-Serra
Peter Sterk
Manimozhiyan Arumugam
Mark Bailey
Laura Baumgartner
Bruce W Birren
Martin J Blaser
Vivien Bonazzi
Tim Booth
Peer Bork
Frederic D Bushman
Pier Luigi Buttigieg
Patrick S G Chain
Emily Charlson
Elizabeth K Costello
Heather Huot-Creasy
Peter Dawyndt
Todd DeSantis
Noah Fierer
Jed A Fuhrman
Rachel E Gallery
Dirk Gevers
Richard A Gibbs
Inigo San Gil
Antonio Gonzalez
Jeffrey I Gordon
Robert Guralnick
Wolfgang Hankeln
Sarah Highlander
Philip Hugenholtz
Janet Jansson
Andrew L Kau
Scott T Kelley
Jerry Kennedy
Dan Knights
Omry Koren
Justin Kuczynski
Nikos Kyrpides
Robert Larsen
Christian L Lauber
Teresa Legg
Ruth E Ley
Catherine A Lozupone
Wolfgang Ludwig
Donna Lyons
Eamonn Maguire
Barbara A Methé
Folker Meyer
Brian Muegge
Sara Nakielny
Karen E Nelson
Diana Nemergut
Josh D Neufeld
Lindsay K Newbold
Anna E Oliver
Norman R Pace
Giriprakash Palanisamy
Jörg Peplies
Joseph Petrosino
Lita Proctor
Elmar Pruesse
Christian Quast
Jeroen Raes
Sujeevan Ratnasingham
Jacques Ravel
David A Relman
Susanna Assunta-Sansone
Patrick D Schloss
Lynn Schriml
Rohini Sinha
Michelle I Smith
Erica Sodergren
Aymé Spo
Jesse Stombaugh
James M Tiedje
Doyle V Ward
George M Weinstock
Doug Wendel
Owen White
Andrew Whiteley
Andreas Wilke
Jennifer R Wortman
Tanya Yatsunenko
Frank Oliver Glöckner

Funding

The Human Genome Sequencing CenterU54HG003273 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2004 to 2015
$341.3M
Virus & Reservoirs CoreP30AI045008 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI James L. Riley · 1999 to 2026
$78.6M
Human Respiratory Tract Microbiome in Health, HIV Infection and HIV Lung DiseaseU01HL098957 · NHLBI · UNIVERSITY OF PENNSYLVANIA · PI BUSHMAN, FREDERIC D, COLLMAN, RONALD G · 2009 to 2013
$3.9M
Diet, Genetic Factors, and the Gut Microbiome in Crohn's DiseaseUH2DK083981 · NIDDK · UNIVERSITY OF PENNSYLVANIA · PI BUSHMAN, FREDERIC D, LEWIS, JAMES D · 2009 to 2010
$2.3M
Identifying population-level variation in cross-sectional and longitudinal HMP stR01HG005975 · NHGRI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI SCHLOSS, PATRICK DAVID · 2010 to 2012
$1.1M
The Role of Syntrophic Bacteria in Methanogenic Metabolism in the Human GutK01DK090285 · NIDDK · UNIVERSITY OF COLORADO DENVER · PI LOZUPONE, CATHERINE · 2011 to 2015
$738k
Howard Hughes Medical InstituteNHGRI NIH HHS R01 HG005975NHGRI NIH HHS U54 HG003273NHLBI NIH HHS U01 HL098957NIAID NIH HHS P30 AI045008NIDDK NIH HHS K01 DK090285NIDDK NIH HHS UH2 DK083981
6 · The paper itself

Abstract

Here we present a standard developed by the Genomic Standards Consortium (GSC) for reporting marker gene sequences--the minimum information about a marker gene sequence (MIMARKS). We also introduce a system for describing the environment from which a biological sample originates. The 'environmental packages' apply to any genome sequence of known origin and can be used in combination with MIMARKS and other GSC checklists. Finally, to establish a unified standard for describing sequence data and to provide a single point of entry for the scientific community to access and learn about GSC checklists, we present the minimum information about any (x) sequence (MIxS). Adoption of MIxS will enhance our ability to analyze natural genetic diversity documented by massive DNA sequencing efforts from myriad ecosystems in our ever-changing biosphere.

Indexed as

BiomarkersEnvironmentChecklistDatabases, GeneticGenes, rRNAGenetic VariationHumansInformation Storage and RetrievalInternetMetagenomicsProgramming LanguagesSequence Analysis, DNASoftwareBiomarkers

Identifiers

PMID21552244
PMCPMC3367316

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.