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CORUM: the comprehensive resource of mammalian protein complexes—2009
2009
Nucleic Acids Research
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The new CORUM 2.0 release encompasses 2837 protein complexes offering the largest and most comprehensive publicly available dataset of mammalian protein complexes. ...
CORUM is a database that provides a manually curated repository of experimentally characterized protein complexes from mammalian organisms, mainly human (64%), mouse (16%) and rat (12%). ...
ACKNOWLEDGEMENTS The authors thank Thomas Rattei for providing data from SIMAP.
FUNDING ...
doi:10.1093/nar/gkp914
pmid:19884131
pmcid:PMC2808912
fatcat:d4tg33cdbzevdgzzafsvlia2nu
CORUM: the comprehensive resource of mammalian protein complexes—2019
2018
Nucleic Acids Research
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The new CORUM 3.0 release encompasses 4274 protein complexes offering the largest and most comprehensive publicly available dataset of mammalian protein complexes. ...
CORUM is a database that provides a manually curated repository of experimentally characterized protein complexes from mammalian organisms, mainly human (67%), mouse (15%) and rat (10%). ...
In order to provide a high-quality resource of information on mammalian protein complexes, we generated the comprehensive resource of mammalian protein complexes (CO-RUM) with 1750 complexes in the first ...
doi:10.1093/nar/gky973
pmid:30357367
pmcid:PMC6323970
fatcat:l6sjbhejtbebdcjlsagorffj4a
Accounting for Redundancy when Integrating Gene Interaction Databases
2009
PLoS ONE
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Knowledge of the interaction partners of an unknown protein allows scientists to understand the complex relationships between genetic products, helps to reveal unknown biological functions and pathways ...
, and get a more detailed picture of an organism's complexity. ...
The first one consists of human interactions from the MIPS CORUM database (Comprehensive Resource of Mammalian protein complexes) [16] . ...
doi:10.1371/journal.pone.0007492
pmid:19847299
pmcid:PMC2760779
fatcat:ordwpzbb6nh63iyj47a3jobt44
SWATH-MS co-expression profiles reveal paralogue interference in protein complex evolution
[article]
2020
bioRxiv
pre-print
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trajectories of protein complexes. ...
Understanding the conservation and evolution of protein complexes is of critical value to decode their function in physiological and pathological processes. ...
CORUM: The comprehensive resource of mammalian protein 370 complexes-2009. Nucleic Acids Res. 38, 497-501 (2009).371 16. Murali, T. et al. ...
doi:10.1101/2020.09.08.287334
fatcat:ytmtfsw5s5fkpcgh6cdedn5msq
Recent advances in large-scale protein interactome mapping
2016
F1000Research
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Ruepp A, Waegele B, Lechner M, et al.: CORUM: the comprehensive resource of mammalian protein complexes--2009. Nucleic Acids Res. 2010; 38(Database issue): D497-501. ...
The comprehensive mapping of these complex networks of stable and transient associations thus remains a key goal, both for systems biology-based initiatives (where it can be combined with other 'omics' ...
Importantly, both studies demonstrated significant overlap with the CORUM (Comprehensive Resource of Mammalian protein complexes) database, a manually curated repository of more than 2,800 mammalian protein ...
doi:10.12688/f1000research.7629.1
pmid:27158474
pmcid:PMC4856108
fatcat:cp7y4ena3bb7vesllsgazucrcm
A Census of Human Soluble Protein Complexes
2012
Cell
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in mammalian cells. ...
protein complexes reported in CORUM. ...
doi:10.1016/j.cell.2012.08.011
pmid:22939629
pmcid:PMC3477804
fatcat:krqmk3jy5be2nhlthybyxuxxxq
Interrogation of Mammalian Protein Complex Structure, Function, and Membership Using Genome-Scale Fitness Screens
2018
Cell Systems
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This study, to the best of our knowledge, represents the largest and most comprehensive analysis of protein complexes using fitness screening in human cells to date. ...
Fraction of CORUM complex recall is defined as the fraction of CORUM protein complexes (n = 1,331) that exhibit correlations at or above that rank threshold. ...
CONTACT FOR REAGENT AND RESOURCE SHARING Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact, Cigall Kadoch ...
doi:10.1016/j.cels.2018.04.011
pmid:29778836
pmcid:PMC6152908
fatcat:4pvqocxi7ndlxasxur5i6dntum
Towards a systematic characterization of protein complex function: a natural language processing and machine-learning framework
[article]
2021
bioRxiv
pre-print
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a protein complex query vector, and (2) a supervised approach using Random Forest (RF) models trained specifically for recovering the GO terms of protein complex queries described in the CORUM protein ...
the potential functions of putative protein complexes. ...
employed the CORUM database (Giurgiu et al., 2019) as the main resource for the 459 ground-truth annotation of protein complexes with GO terms, as CORUM is a compendium of manually 460 curated and experimentally ...
doi:10.1101/2021.02.24.432789
fatcat:qgoj3ntf4nhplhexwkix63kvgm
On the Planarity of Validated Complexes of Model Organisms in Protein-Protein Interaction Networks
[chapter]
2020
Lecture Notes in Computer Science
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When testing the planarity of known complex subgraphs in S. cerevisiae and selected mammalian PPIs, we find that a majority of validated complexes possess this planar property. ...
Here, we investigate the planarity property in network models of protein complexes. ...
and YHTP2008 (n = 400), and other mammalian complexes from the Comprehensive Resource of Mammalian Protein Compleses (CORUM) dataset (See Methods for more detailed information). ...
doi:10.1007/978-3-030-50371-0_48
fatcat:oh4mgvcbrfc2xkz23rx5cc5w5u
A comparison of three weighted human gene functional association networks
2012
2012 IEEE 6th International Conference on Systems Biology (ISB)
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Gene-gene association or protein-protein interaction databases have been important resource for the study of cellular functions and human diseases. ...
These years some meta-databases have been built by integrating various resources of gene functional associations and weighing the evidence of each association by some score systems. ...
ACKNOWLEDGMENT This research was supported by the National Natural Science Foundation of China (10971227). ...
doi:10.1109/isb.2012.6314108
dblp:conf/isb/ZhaoWYLCSF12
fatcat:irviplxvkzektjfymohjblfvy4
Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx
2009
BMC Genomics
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Our data provide the most comprehensive sequence resource currently available for reef-building corals, and include an extensive collection of potential genetic markers for association and population connectivity ...
Based on sequence similarity with known proteins, these analyses identified ~11,000 different genes expressed in a range of conditions including thermal stress and settlement induction. ...
This research was supported in part by the Indiana METACyt Initiative of Indiana University, funded in part through a major grant from the Lilly Endowment, Inc., by the University Information Technology ...
doi:10.1186/1471-2164-10-219
pmid:19435504
pmcid:PMC2689275
fatcat:qw3htpuht5hhlaug5zyavex36u
The BioPlex Network: A Systematic Exploration of the Human Interactome
2015
Cell
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BioPlex accurately depicts known complexes, attaining 80%-100% coverage for most CORUM complexes. ...
The network readily subdivides into communities that correspond to complexes or clusters of functionally related proteins. ...
This work was supported by the NIH (U41 HG006673 to S.P. ...
doi:10.1016/j.cell.2015.06.043
pmid:26186194
pmcid:PMC4617211
fatcat:w467auzm35ebtarqpqr6pbxmry
MoNetFamily: a web server to infer homologous modules and module–module interaction networks in vertebrates
2012
Nucleic Acids Research
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MoNetFamily then infers the homologous modules of the selected module candidate using protein-protein interaction (PPI) families. ...
Finally, MoNetFamily shows the conserved proteins, PPI profiles and functional annotations of the module family. ...
A total of 1785 protein complexes (three or more proteins) were selected from comprehensive resource of mammalian protein complexes database (CORUM; released on 02 September 2009) (9) and 1252 structure ...
doi:10.1093/nar/gks541
pmid:22689643
pmcid:PMC3394321
fatcat:5dqos6mnhvfrflqof6sawmloui
BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain
2020
Cell Systems
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Connectivity webs mediate the unique biology of the mammalian brain. Yet, while cell circuit maps are increasingly available, knowledge of their underlying molecular networks remains limited. ...
This brain interaction map (BraInMap) resource facilitates mechanistic exploration of the unique molecular machinery driving core cellular processes of the central nervous system. ...
This work was supported in part by funds from the ALS Society of Canada, Canadian Institutes of Health Research (FDN-154318) , and the U.S. ...
doi:10.1016/j.cels.2020.03.003
pmid:32325033
pmcid:PMC7938770
fatcat:3h373uoidncwvalx6qb65pbarm
iRefWeb: interactive analysis of consolidated protein interaction data and their supporting evidence
2010
Database: The Journal of Biological Databases and Curation
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Acknowledgements The authors wish to thank Sandra Orchard for helpful suggestions regarding several iRefWeb features. Conflict of interest statement. None declared.
Author Contribution ...
In CORUM, which specializes in the annotation of mammalian complexes, unique annotations comprise as much as 67% of its records, but for a much smaller pool of records (1749 unique annotations out of 2607 ...
Some focus entirely on interactions in human (HPRD), in mammalian organisms (CORUM, MPPI) or yeast (MPact). ...
doi:10.1093/database/baq023
pmid:20940177
pmcid:PMC2963317
fatcat:2o7m36ql4vdbbbix7venxl3i6m
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