2020
A reference map of the human binary protein interactome
Luck K, Kim D, Lambourne L, Spirohn K, Begg B, Bian W, Brignall R, Cafarelli T, Campos-Laborie F, Charloteaux B, Choi D, Coté A, Daley M, Deimling S, Desbuleux A, Dricot A, Gebbia M, Hardy M, Kishore N, Knapp J, Kovács I, Lemmens I, Mee M, Mellor J, Pollis C, Pons C, Richardson A, Schlabach S, Teeking B, Yadav A, Babor M, Balcha D, Basha O, Bowman-Colin C, Chin S, Choi S, Colabella C, Coppin G, D’Amata C, De Ridder D, De Rouck S, Duran-Frigola M, Ennajdaoui H, Goebels F, Goehring L, Gopal A, Haddad G, Hatchi E, Helmy M, Jacob Y, Kassa Y, Landini S, Li R, van Lieshout N, MacWilliams A, Markey D, Paulson J, Rangarajan S, Rasla J, Rayhan A, Rolland T, San-Miguel A, Shen Y, Sheykhkarimli D, Sheynkman G, Simonovsky E, Taşan M, Tejeda A, Tropepe V, Twizere J, Wang Y, Weatheritt R, Weile J, Xia Y, Yang X, Yeger-Lotem E, Zhong Q, Aloy P, Bader G, De Las Rivas J, Gaudet S, Hao T, Rak J, Tavernier J, Hill D, Vidal M, Roth F, Calderwood M. A reference map of the human binary protein interactome. Nature 2020, 580: 402-408. PMID: 32296183, PMCID: PMC7169983, DOI: 10.1038/s41586-020-2188-x.Peer-Reviewed Original ResearchConceptsProtein-protein interactionsBinary protein interactionsTissue-specific networksContext-specific functionsTissue-specific phenotypesSubcellular rolesGenome functionProtein interactomeInteractome networkMendelian diseasesInteractome mapCurated interactionsProtein interactionsCellular contextCellular functionsPhenotypic outcomesCellular organizationMolecular mechanismsInteractomeReference mapGlobal insightGenomeHuriComprehensive understandingInteraction
2018
Draft Genome Sequence of an Erwinia tracheiphila Isolate from an Infected Muskmelon (Cucumis melo)
Shapiro L, Andrade A, Scully E, Rocha J, Paulson J, Kolter R. Draft Genome Sequence of an Erwinia tracheiphila Isolate from an Infected Muskmelon (Cucumis melo). Microbiology Resource Announcements 2018, 7: 10.1128/mra.01058-18. PMID: 30533754, PMCID: PMC6256489, DOI: 10.1128/mra.01058-18.Peer-Reviewed Original ResearchInfected muskmelonDraft genome sequenceBacterial plant pathogensCucumis meloChromosome contigPlasmid contigsEastern North AmericaGenome sequencePlant pathogensE. tracheiphilaGenetic variationErwinia tracheiphilaContigsGenomeCucumisNorth AmericaMuskmelonBacteriophageErwiniaPlasmidPathogensSequenceIsolatesHistopathological Image QTL Discovery of Immune Infiltration Variants
Barry J, Fagny M, Paulson J, Aerts H, Platig J, Quackenbush J. Histopathological Image QTL Discovery of Immune Infiltration Variants. IScience 2018, 5: 80-89. PMID: 30240647, PMCID: PMC6123851, DOI: 10.1016/j.isci.2018.07.001.Peer-Reviewed Original ResearchGenotype-Tissue ExpressionQuantitative traitsQuantitative trait lociGenotype-phenotype associationsVariant discoveryThyroid pathology imagesGenomic dataGenomic networksAssociation studiesTrait lociQTL dataQuantitative imaging biomarkersTissue length scalesMolecular readoutsImaging biomarkersClinical metadataGenomeImmune cell infiltrationQuantitative imaging featuresTXNDC5Hypothyroid datasetTraitsCell infiltrationVariantsMedical records