Evidence map›Paper›PMID 26771498›Full record

ArticleCell2016

A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.

Tommy V Vo, Jishnu Das, Michael J Meyer, Nicolas A Cordero, Nurten Akturk, Xiaomu Wei, Benjamin J Fair, Andrew G Degatano, Robert Fragoza, Lisa G Liu and 10 more

Open access · bronzeAbstract read
In one paragraph

Article in Cell, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.

0numbers the graph read from it
0cells of the map it votes in
69citing papers in PubMed
9.9field-weighted citation impact, top 2% 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

69 citing papers in PubMed, 128 citations in OpenAlex.

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  9. A meiotic driver hijacks an epigenetic reader to disrupt mitosis in noncarrier offspring.Proceedings of the National Academy of Sciences of the United States of America · 2024
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9 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

20 authors at 5 institutions in 4 countries.

Tommy V VoDepartment of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA; Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Jishnu DasDepartment of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA.
Michael J MeyerDepartment of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA; Tri-Institutional Training Program in Computational Biology and Medicine, New York, NY 10065, USA.
Nicolas A CorderoWeill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA.
Nurten AkturkWeill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA.
Xiaomu WeiWeill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA; Department of Medicine, Weill Cornell College of Medicine, New York, NY 10021, USA.
Benjamin J FairDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Andrew G DegatanoWeill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA.
Robert FragozaDepartment of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA; Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Lisa G LiuWeill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA.
Akihisa MatsuyamaChemical Genomics Research Group, RIKEN Center for Sustainable Resource Center, Wako, Saitama 351-0198, Japan.
Michelle TrickeyUniversity College London Cancer Institute, Paul O'Gorman Building, 72 Huntley Street, London WC1E 6BT, UK.
Sachi HoribataDepartment of Biomedical Sciences, Baker Institute for Animal Health, Cornell University, Ithaca, NY 14853, USA.
Andrew GrimsonDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Hiroyuki YamanoUniversity College London Cancer Institute, Paul O'Gorman Building, 72 Huntley Street, London WC1E 6BT, UK.
Minoru YoshidaChemical Genomics Research Group, RIKEN Center for Sustainable Resource Center, Wako, Saitama 351-0198, Japan.
Frederick P RothCenter for Cancer Systems Biology and Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02215, USA; Donnelly Centre and Departments of Molecular Genetics and Computer Science, University of Toronto, Toronto, ON M5S 3E1, Canada; Canadian Institute for Advanced Research, Toronto, ON M5G 1Z8, Canada; Lunenfeld-Tanenbaum Research Institute, Mt. Sinai Hospital, Toronto, ON M5G 1X5, Canada.
Jeffrey A PleissDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Yu XiaCenter for Cancer Systems Biology and Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02215, USA; Department of Bioengineering, Faculty of Engineering, McGill University, Montreal, QC H3A 0C3, Canada.
Haiyuan YuDepartment of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY 14853, USA. Electronic address: haiyuan.yu@cornell.edu.
Cornell University · USLondon Cancer · GBRIKEN Center for Sustainable Resource Science · JPCanadian Institute for Advanced Research · CADana-Farber Cancer Institute · US

Funding

Genomic Analysis of Network Perturbations in Human DiseaseP50HG004233 · NHGRI · DANA-FARBER CANCER INST · PI VIDAL, MARC · 2007 to 2017
$31.6M
The C. elegans Interactome ProjectR01HG001715 · NHGRI · MASSACHUSETTS GENERAL HOSPITAL · PI HILL, DAVID E., ROTH, FREDERICK P · 1998 to 2010
$16.5M
Mapping the first half of the REFERENCE human binary protein interactomeU01HG001715 · NHGRI · DANA-FARBER CANCER INST · PI HILL, DAVID E., ROTH, FREDERICK P · 2012 to 2014
$5.4M
Resource ProjectU41HG001715 · NHGRI · DANA-FARBER CANCER INST · PI HILL, DAVID E. · 2015 to 2017
$4.7M
Mechanisms of environmentally responsive splicing in S.PombeR01GM098634 · NIGMS · CORNELL UNIVERSITY · PI PLEISS, JEFFREY A · 2011 to 2020
$2.9M
Towards a comprehensive protein interactome network in Schizosaccharomyces pombeR01GM097358 · NIGMS · CORNELL UNIVERSITY · PI YU, HAIYUAN · 2012 to 2016
$1.7M
Using Protein Interactome Networks to Understand the Functional Role of Coding DNR01GM104424 · NIGMS · WEILL MEDICAL COLL OF CORNELL UNIV · PI LIPKIN, STEVEN M, YU, HAIYUAN · 2013 to 2016
$1.7M
Identifying cis and trans factors required for microRNA functionR01GM105668 · NIGMS · CORNELL UNIVERSITY · PI GRIMSON, ANDREW W · 2013 to 2017
$1.5M
Cancer Research UK 13586NHGRI NIH HHS HG001715NHGRI NIH HHS HG004233NHGRI NIH HHS P50 HG004233NHGRI NIH HHS R01 HG001715NHGRI NIH HHS U01 HG001715NHGRI NIH HHS U41 HG001715NIGMS NIH HHS GM097358NIGMS NIH HHS GM098634NIGMS NIH HHS GM104424NIGMS NIH HHS R01 GM097358NIGMS NIH HHS R01 GM098634NIGMS NIH HHS R01 GM104424NIGMS NIH HHS R01 GM105668Worldwide Cancer Research 09-0658
6 · The paper itself

Abstract

Here, we present FissionNet, a proteome-wide binary protein interactome for S. pombe, comprising 2,278 high-quality interactions, of which ∼ 50% were previously not reported in any species. FissionNet unravels previously unreported interactions implicated in processes such as gene silencing and pre-mRNA splicing. We developed a rigorous network comparison framework that accounts for assay sensitivity and specificity, revealing extensive species-specific network rewiring between fission yeast, budding yeast, and human. Surprisingly, although genes are better conserved between the yeasts, S. pombe interactions are significantly better conserved in human than in S. cerevisiae. Our framework also reveals that different modes of gene duplication influence the extent to which paralogous proteins are functionally repurposed. Finally, cross-species interactome mapping demonstrates that coevolution of interacting proteins is remarkably prevalent, a result with important implications for studying human disease in model organisms. Overall, FissionNet is a valuable resource for understanding protein functions and their evolution.

Indexed as

Protein Interaction MapsDatabases, ProteinDiseaseEvolution, MolecularHumansPrincipal Component AnalysisProteomeSaccharomyces cerevisiaeSchizosaccharomycesSchizosaccharomyces pombe ProteinsProteomeSchizosaccharomyces pombe Proteins

Identifiers

PMID26771498
PMCPMC4715267
OpenAlexW2239238081

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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.