2023
Apoptotic cell death in disease—Current understanding of the NCCD 2023
Vitale I, Pietrocola F, Guilbaud E, Aaronson S, Abrams J, Adam D, Agostini M, Agostinis P, Alnemri E, Altucci L, Amelio I, Andrews D, Aqeilan R, Arama E, Baehrecke E, Balachandran S, Bano D, Barlev N, Bartek J, Bazan N, Becker C, Bernassola F, Bertrand M, Bianchi M, Blagosklonny M, Blander J, Blandino G, Blomgren K, Borner C, Bortner C, Bove P, Boya P, Brenner C, Broz P, Brunner T, Damgaard R, Calin G, Campanella M, Candi E, Carbone M, Carmona-Gutierrez D, Cecconi F, Chan F, Chen G, Chen Q, Chen Y, Cheng E, Chipuk J, Cidlowski J, Ciechanover A, Ciliberto G, Conrad M, Cubillos-Ruiz J, Czabotar P, D’Angiolella V, Daugaard M, Dawson T, Dawson V, De Maria R, De Strooper B, Debatin K, Deberardinis R, Degterev A, Del Sal G, Deshmukh M, Di Virgilio F, Diederich M, Dixon S, Dynlacht B, El-Deiry W, Elrod J, Engeland K, Fimia G, Galassi C, Ganini C, Garcia-Saez A, Garg A, Garrido C, Gavathiotis E, Gerlic M, Ghosh S, Green D, Greene L, Gronemeyer H, Häcker G, Hajnóczky G, Hardwick J, Haupt Y, He S, Heery D, Hengartner M, Hetz C, Hildeman D, Ichijo H, Inoue S, Jäättelä M, Janic A, Joseph B, Jost P, Kanneganti T, Karin M, Kashkar H, Kaufmann T, Kelly G, Kepp O, Kimchi A, Kitsis R, Klionsky D, Kluck R, Krysko D, Kulms D, Kumar S, Lavandero S, Lavrik I, Lemasters J, Liccardi G, Linkermann A, Lipton S, Lockshin R, López-Otín C, Luedde T, MacFarlane M, Madeo F, Malorni W, Manic G, Mantovani R, Marchi S, Marine J, Martin S, Martinou J, Mastroberardino P, Medema J, Mehlen P, Meier P, Melino G, Melino S, Miao E, Moll U, Muñoz-Pinedo C, Murphy D, Niklison-Chirou M, Novelli F, Núñez G, Oberst A, Ofengeim D, Opferman J, Oren M, Pagano M, Panaretakis T, Pasparakis M, Penninger J, Pentimalli F, Pereira D, Pervaiz S, Peter M, Pinton P, Porta G, Prehn J, Puthalakath H, Rabinovich G, Rajalingam K, Ravichandran K, Rehm M, Ricci J, Rizzuto R, Robinson N, Rodrigues C, Rotblat B, Rothlin C, Rubinsztein D, Rudel T, Rufini A, Ryan K, Sarosiek K, Sawa A, Sayan E, Schroder K, Scorrano L, Sesti F, Shao F, Shi Y, Sica G, Silke J, Simon H, Sistigu A, Stephanou A, Stockwell B, Strapazzon F, Strasser A, Sun L, Sun E, Sun Q, Szabadkai G, Tait S, Tang D, Tavernarakis N, Troy C, Turk B, Urbano N, Vandenabeele P, Vanden Berghe T, Vander Heiden M, Vanderluit J, Verkhratsky A, Villunger A, von Karstedt S, Voss A, Vousden K, Vucic D, Vuri D, Wagner E, Walczak H, Wallach D, Wang R, Wang Y, Weber A, Wood W, Yamazaki T, Yang H, Zakeri Z, Zawacka-Pankau J, Zhang L, Zhang H, Zhivotovsky B, Zhou W, Piacentini M, Kroemer G, Galluzzi L. Apoptotic cell death in disease—Current understanding of the NCCD 2023. Cell Death & Differentiation 2023, 30: 1097-1154. PMID: 37100955, PMCID: PMC10130819, DOI: 10.1038/s41418-023-01153-w.Peer-Reviewed Original ResearchConceptsRegulated cell deathCell deathAdult tissue homeostasisMultiple human disordersApoptotic cell deathOrganismal developmentOrganismal homeostasisMolecular machineryContext of diseaseApoptotic apparatusMammalian systemsCaspase familyTissue homeostasisGenetic strategiesHuman disordersNomenclature CommitteeApoptosisHomeostasisMachineryOncogenesisProteaseCell lossActivationFamilyDeath
2015
A genetic toolkit for tagging intronic MiMIC containing genes
Nagarkar-Jaiswal S, DeLuca S, Lee P, Lin W, Pan H, Zuo Z, Lv J, Spradling A, Bellen H. A genetic toolkit for tagging intronic MiMIC containing genes. ELife 2015, 4: e08469. PMID: 26102525, PMCID: PMC4499919, DOI: 10.7554/elife.08469.Peer-Reviewed Original ResearchConceptsProtein interaction partnersGenes/proteinsProtein expression patternsUncharacterized genesGenetic toolkitIntegration cassetteMiMIC insertionsPhiC31 recombinaseProtein tagsFRT sequencesNew exonsGenetic strategiesInteraction partnersExpression patternsGenesExonsPlasmid DNAProteinMass specTagsIntronsLarge collectionGFPImmunoprecipitationMimics
2014
Chapter 8 Towards the Molecular Mechanisms of Transgenerational Epigenetic Inheritance Insights from Transgenic Mice
Kaundal R, Yang Y, Nottoli T, Chi T. Chapter 8 Towards the Molecular Mechanisms of Transgenerational Epigenetic Inheritance Insights from Transgenic Mice. 2014, 75-85. DOI: 10.1016/b978-0-12-405944-3.00008-8.Peer-Reviewed Original ResearchTransgenerational epigenetic inheritanceChromatin marksChromatin modificationsEpigenetic inheritanceGlobal epigenetic reprogrammingTraditional transgenic miceCopy numberGene-targeting methodsSite-specific integrationMitotic inheritanceHeritable perturbationsEpigenetic reprogrammingTransgenerational inheritanceTractable systemEpigenetic modificationsUnderlying genesEpigenetic perturbationsCpG methylationTransgenic miceGenetic strategiesReporter geneCOL1A1 locusMolecular mechanismsSubsequent embryogenesisGermline transmission
2010
The flowering of Arabidopsis flower development
Irish VF. The flowering of Arabidopsis flower development. The Plant Journal 2010, 61: 1014-1028. PMID: 20409275, DOI: 10.1111/j.1365-313x.2009.04065.x.Peer-Reviewed Original ResearchConceptsRegulatory pathwaysArabidopsis genome sequenceArabidopsis flower developmentPremier model systemArabidopsis flowersPlant developmentNegative feedback loopFlower developmentGenome sequenceReproductive structuresStereotypical architectureGenetic strategiesFlower formationGenetic analysisEnvironmental perturbationsFlower initiationFeedback regulationFlowersSterile organModel systemGenesWealth of insightsFeedback loopPathwayArabidopsis
2008
A novel genetic strategy reveals unexpected roles of the Swi–Snf–like chromatin-remodeling BAF complex in thymocyte development
Jani A, Wan M, Zhang J, Cui K, Wu J, Preston-Hurlburt P, Khatri R, Zhao K, Chi T. A novel genetic strategy reveals unexpected roles of the Swi–Snf–like chromatin-remodeling BAF complex in thymocyte development. Journal Of Cell Biology 2008, 183: i7-i7. DOI: 10.1083/jcb1833oia7.Peer-Reviewed Original ResearchA novel genetic strategy reveals unexpected roles of the Swi–Snf–like chromatin-remodeling BAF complex in thymocyte development
Jani A, Wan M, Zhang J, Cui K, Wu J, Preston-Hurlburt P, Khatri R, Zhao K, Chi T. A novel genetic strategy reveals unexpected roles of the Swi–Snf–like chromatin-remodeling BAF complex in thymocyte development. Journal Of Experimental Medicine 2008, 205: 2813-2825. PMID: 18955569, PMCID: PMC2585832, DOI: 10.1084/jem.20080938.Peer-Reviewed Original ResearchConceptsPoint mutantsUnexpected roleImportant gene functionsThymocyte developmentNovel genetic strategyPoint mutationsEarly thymocyte developmentMammalian geneticsChromatin templatesSWI-SNFBAF complexGene functionATPase subunitsDeletion mutantsFactor complexCD4 locusTarget genesGenetic strategiesCD4 activationMutantsNovel activityPhysical interactionDeletionBRGMutationsParvoviruses: General Features
Tattersall P. Parvoviruses: General Features. 2008, 90-97. DOI: 10.1016/b978-012374410-4.00463-5.Peer-Reviewed Original ResearchDNA replication initiator proteinParvovirus DNA replicationReplication initiator proteinSubfamily DensovirinaeArthropod speciesInitiator proteinDNA replicationSubfamily ParvovirinaeDNA genomeCoding sequenceGenetic strategiesNonenveloped virusesGenomic moleculesVertebrate hostsExpression cassetteTerminal repeatFamily ParvoviridaeGenusTerminal hairpinsStructural polypeptidesDensovirinaeSequenceGenomeInsectsTelomeres
2004
Chemical Genetic Control of Protein Levels: Selective in Vivo Targeted Degradation
Schneekloth JS, Fonseca FN, Koldobskiy M, Mandal A, Deshaies R, Sakamoto K, Crews CM. Chemical Genetic Control of Protein Levels: Selective in Vivo Targeted Degradation. Journal Of The American Chemical Society 2004, 126: 3748-3754. PMID: 15038727, DOI: 10.1021/ja039025z.Peer-Reviewed Original ResearchConceptsGreen fluorescent proteinProtein functionCell biological questionsGenetic model systemUbiquitin-proteasome pathwayChemical knockoutTargeted degradationBiological questionsProtein degradationGenetic strategiesGenetic controlGenetic lossTarget proteinsFluorescent proteinChimeric moleculesCultured cellsFKBP12 ligandsProteinProtein levelsModel systemWestern blotGeneral strategyFunction analysisVivo examplesFluorometric analysis
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