Evidence map›Paper›PMID 40950083›Full record

ArticlebioRxiv : the preprint server for biology2025

Logan: Planetary-Scale Genome Assembly Surveys Life's Diversity.

Rayan Chikhi, Téo Lemane, Raphaël Loll-Krippleber, Mercè Montoliu-Nerin, Brice Raffestin, Antonio Pedro Camargo, Carson J Miller, Mateus Bernabe Fiamenghi, Daniel Paiva Agustinho, Sina Majidian and 21 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

31 authors.

Rayan ChikhiInstitut Pasteur, Université Paris Cité, CNRS UMR3525, Paris, France.
Téo LemaneGénomique Métabolique, Genoscope, Institut de Biologie François Jacob, CEA, CNRS, Univ. Evry, Université Paris-Saclay, Evry, France.
Raphaël Loll-KrippleberDepartment of Biochemistry, University of Toronto, Toronto, Canada.
Mercè Montoliu-NerinTree of Life, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, UK.
Brice RaffestinInstitut Pasteur, Université Paris Cité, CNRS UMR3525, Paris, France.
Antonio Pedro CamargoDepartment of Biochemistry, Institute of Chemistry, University of São Paulo, São Paulo, SP, Brazil.
Carson J MillerDepartment of Microbiology, University of Washington, Seattle, WA, USA.
Mateus Bernabe FiamenghiDOE Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Daniel Paiva AgustinhoHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Sina MajidianDepartment of Computer Science, Johns Hopkins University, 3400 North Charles St., Baltimore, MD 21218, USA.
Greg AutricAmazon Web Services, Paris, France.
Maxime HuguesAmazon Web Services Inc., Seattle, USA.
Junkyoung LeeSchool of Biological Sciences, Seoul National University, South Korea.
Roland FaureInstitut Pasteur, Université Paris Cité, CNRS UMR3525, Paris, France.
Kristen D CurryInstitut Pasteur, Université Paris Cité, CNRS UMR3525, Paris, France.
Jorge A Moura de SousaInstitut Pasteur, Université Paris Cité, CNRS UMR3525, Paris, France.
Eduardo P C RochaInstitut Pasteur, Université Paris Cité, CNRS UMR3525, Paris, France.
David KoslickiComputer Science and Engineering, Biology, and the Huck Institute of the Life Sciences, Pennsylvania State University, University Park, PA, USA.
Paul MedvedevComputer Science and Engineering, Biology, and the Huck Institute of the Life Sciences, Pennsylvania State University, University Park, PA, USA.
Purav GuptaThe Donnelly Centre for Cellular & Biomolecular Research, University of Toronto, Toronto, Canada.
Jessica ShenThe Donnelly Centre for Cellular & Biomolecular Research, University of Toronto, Toronto, Canada.
Alejandro Morales-TapiaThe Donnelly Centre for Cellular & Biomolecular Research, University of Toronto, Toronto, Canada.
Kate SihutaDepartment of Biochemistry, University of Toronto, Toronto, Canada.
Peter J RoyDepartment of Biochemistry, University of Toronto, Toronto, Canada.
Grant W BrownDepartment of Biochemistry, University of Toronto, Toronto, Canada.
Robert C EdgarIndependent.
Anton KorobeynikovIndependent.
Martin SteineggerAmazon Web Services Inc., Seattle, USA.
Caleb A LareauComputational and Systems Biology Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA.
Pierre PeterlongoUniversity Rennes, Inria, CNRS, IRISA - UMR 6074, 35000 Rennes, France.
Artem BabaianThe Donnelly Centre for Cellular & Biomolecular Research, University of Toronto, Toronto, Canada.

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI SELWYN M VICKERS · 1985 to 2026
$347.4M
Viral Diversity and Pathogenicity in Mucosal Respiratory and Gastrointestinal DiseaseU19AI144297 · NIAID · BAYLOR COLLEGE OF MEDICINE · PI BLUTT, SARAH E · 2019 to 2024
$30.1M
Leveraging k-mer sketching statistics to enhance metagenomic methods and alignment algorithmsR01GM146462 · NIGMS · PENNSYLVANIA STATE UNIVERSITY, THE · PI Antonio Blanca Pimentel, David Koslicki · 2022 to 2026
$2.2M
Charting somatic evolution via single-cell multiomicsR00HG012579 · NHGRI · SLOAN-KETTERING INST CAN RESEARCH · PI LAREAU, CALEB ANDREW · 2023 to 2025
$747k
NCI NIH HHS P30 CA008748NHGRI NIH HHS R00 HG012579NIAID NIH HHS U19 AI144297NIGMS NIH HHS R01 GM146462
6 · The paper itself

Abstract

The breadth of life's diversity is unfathomable, but public nucleic acid sequencing data offers a window into the dispersion and evolution of genetic diversity across Earth. However the rapid growth and accumulation of sequence data have outpaced efficient analysis capabilities. The largest collection of freely available sequencing data is the Sequence Read Archive (SRA), comprising 27.3 million datasets or 5 × 10

Identifiers

PMID40950083
PMCPMC12424806

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.