By Dr Robert Weatheritt

Journal articles

Xiao MS; Damodaran AP; Kumari B; Dickson E; Xing K; On TA; Parab N; King HE; Perez AR; Guiblet WM; Duncan G; Che A; Chari R; Andresson T; Vidigal JA; Weatheritt RJ; Aregger M; Gonatopoulos-Pournatzis T, 2024, 'Genome-scale exon perturbation screens uncover exons critical for cell fitness', Molecular Cell, 84, pp. 2553 - 2572.e19, http://dx.doi.org/10.1016/j.molcel.2024.05.024

Roth JF; Braunschweig U; Wu M; Li JD; Lin ZY; Larsen B; Weatheritt RJ; Gingras AC; Blencowe BJ, 2023, 'Systematic analysis of alternative exon-dependent interactome remodeling reveals multitasking functions of gene regulatory factors', Molecular Cell, 83, pp. 4222 - 4238.e10, http://dx.doi.org/10.1016/j.molcel.2023.10.034

Guerra M; Medici V; Weatheritt R; Corvino V; Palacios D; Geloso MC; Farini D; Sette C, 2023, 'Fetal exposure to valproic acid dysregulates the expression of autism-linked genes in the developing cerebellum', Translational Psychiatry, 13, http://dx.doi.org/10.1038/s41398-023-02391-9

Sinitcyn P; Richards AL; Weatheritt RJ; Brademan DR; Marx H; Shishkova E; Meyer JG; Hebert AS; Westphall MS; Blencowe BJ; Cox J; Coon JJ, 2023, 'Global detection of human variants and isoforms by deep proteome sequencing', Nature Biotechnology, 41, pp. 1776 - 1786, http://dx.doi.org/10.1038/s41587-023-01714-x

Kjer-Hansen P; Weatheritt RJ, 2023, 'The function of alternative splicing in the proteome: rewiring protein interactomes to put old functions into new contexts', Nature Structural and Molecular Biology, 30, pp. 1844 - 1856, http://dx.doi.org/10.1038/s41594-023-01155-9

Skvortsova K; Bertrand S; Voronov D; Duckett PE; Ross SE; Magri MS; Maeso I; Weatheritt RJ; Gómez Skarmeta JL; Arnone MI; Escriva H; Bogdanovic O, 2022, 'Active DNA demethylation of developmental cis-regulatory regions predates vertebrate origins', Science Advances, 8, http://dx.doi.org/10.1126/sciadv.abn2258

Wang J; Weatheritt R; Voineagu I, 2022, 'Alu-minating the Mechanisms Underlying Primate Cortex Evolution', Biological Psychiatry, 92, pp. 760 - 771, http://dx.doi.org/10.1016/j.biopsych.2022.04.021

Bartonicek N; Rouet R; Warren J; Loetsch C; Rodriguez GS; Walters S; Lin F; Zahra D; Blackburn J; Hammond JM; Reis ALM; Deveson IW; Zammit N; Zeraati M; Grey S; Christ D; Mattick JS; Chtanova T; Brink R; Dinger ME; Weatheritt RJ; Sprent J; King C, 2022, 'The retroelement Lx9 puts a brake on the immune response to virus infection', Nature, 608, pp. 757 - 765, http://dx.doi.org/10.1038/s41586-022-05054-9

Han H; Best AJ; Braunschweig U; Mikolajewicz N; Li JD; Roth J; Chowdhury F; Mantica F; Nabeel-Shah S; Parada G; Brown KR; O'Hanlon D; Wei J; Yao Y; Zid AA; Comsa LC; Jen M; Wang J; Datti A; Gonatopoulos-Pournatzis T; Weatheritt RJ; Greenblatt JF; Wrana JL; Irimia M; Gingras AC; Moffat J; Blencowe BJ, 2022, 'Systematic exploration of dynamic splicing networks reveals conserved multistage regulators of neurogenesis', Molecular Cell, 82, pp. 2982 - 2999.e14, http://dx.doi.org/10.1016/j.molcel.2022.06.036

Barutcu AR; Wu M; Braunschweig U; Dyakov BJA; Luo Z; Turner KM; Durbic T; Lin ZY; Weatheritt RJ; Maass PG; Gingras AC; Blencowe BJ, 2022, 'Systematic mapping of nuclear domain-associated transcripts reveals speckles and lamina as hubs of functionally distinct retained introns', Molecular Cell, 82, pp. 1035 - 1052.e9, http://dx.doi.org/10.1016/j.molcel.2021.12.010

Bournazos AM; Riley LG; Bommireddipalli S; Ades L; Akesson LS; Al-Shinnag M; Alexander SI; Archibald AD; Balasubramaniam S; Berman Y; Beshay V; Boggs K; Bojadzieva J; Brown NJ; Bryen SJ; Buckley MF; Chong B; Davis MR; Dawes R; Delatycki M; Donaldson L; Downie L; Edwards C; Edwards M; Engel A; Ewans LJ; Faiz F; Fennell A; Field M; Freckmann ML; Gallacher L; Gear R; Goel H; Goh S; Goodwin L; Hanna B; Harraway J; Higgins M; Ho G; Hopper BK; Horton AE; Hunter MF; Huq AJ; Josephi-Taylor S; Joshi H; Kirk E; Krzesinski E; Kumar KR; Lemckert F; Leventer RJ; Lindsey-Temple SE; Lunke S; Ma A; Macaskill S; Mallawaarachchi A; Marty M; Marum JE; McCarthy HJ; Menezes MP; McLean A; Milnes D; Mohammad S; Mowat D; Niaz A; Palmer EE; Patel C; Patel SG; Phelan D; Pinner JR; Rajagopalan S; Regan M; Rodgers J; Rodrigues M; Roxburgh RH; Sachdev R; Roscioli T; Samarasekera R; Sandaradura SA; Savva E; Schindler T; Shah M; Sinnerbrink IB; Smith JM; Smith RJ; Springer A; Stark Z; Strom SP; Sue CM; Tan K; Tan TY; Tantsis E; Tchan MC; Thompson BA; Trainer AH; van Spaendonck-Zwarts K; Walsh R; Warwick L; White S; White SM; Williams MG, 2022, 'Standardized practices for RNA diagnostics using clinically accessible specimens reclassifies 75% of putative splicing variants', Genetics in Medicine, 24, pp. 130 - 145, http://dx.doi.org/10.1016/j.gim.2021.09.001

Ha KCH; Sterne-Weiler T; Morris Q; Weatheritt RJ; Blencowe BJ, 2021, 'Differential contribution of transcriptomic regulatory layers in the definition of neuronal identity', Nature Communications, 12, http://dx.doi.org/10.1038/s41467-020-20483-8

Santos-Rodriguez G; Voineagu I; Weatheritt RJ, 2021, 'Evolutionary dynamics of circular rnas in primates', eLife, 10, http://dx.doi.org/10.7554/eLife.69148

Santos-Rodriguez G; Voineagu I; Weatheritt RJ, 2021, 'Evolutionary dynamics of circular RNAs in primates', , http://dx.doi.org/10.1101/2021.05.01.442284

Farini D; Cesari E; Weatheritt RJ; La Sala G; Naro C; Pagliarini V; Bonvissuto D; Medici V; Guerra M; Di Pietro C; Rizzo FR; Musella A; Carola V; Centonze D; Blencowe BJ; Marazziti D; Sette C, 2020, 'A Dynamic Splicing Program Ensures Proper Synaptic Connections in the Developing Cerebellum', Cell Reports, 31, http://dx.doi.org/10.1016/j.celrep.2020.107703

Luck K; Kim DK; Lambourne L; Spirohn K; Begg BE; Bian W; Brignall R; Cafarelli T; Campos-Laborie FJ; Charloteaux B; Choi D; Coté AG; Daley M; Deimling S; Desbuleux A; Dricot A; Gebbia M; Hardy MF; Kishore N; Knapp JJ; Kovács IA; Lemmens I; Mee MW; Mellor JC; Pollis C; Pons C; Richardson AD; Schlabach S; Teeking B; Yadav A; Babor M; Balcha D; Basha O; Bowman-Colin C; Chin SF; Choi SG; 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 JN; Rangarajan S; Rasla J; Rayhan A; Rolland T; San-Miguel A; Shen Y; Sheykhkarimli D; Sheynkman GM; Simonovsky E; Taşan M; Tejeda A; Tropepe V; Twizere JC; Wang Y; Weatheritt RJ; Weile J; Xia Y; Yang X; Yeger-Lotem E; Zhong Q; Aloy P; Bader GD; De Las Rivas J; Gaudet S; Hao T; Rak J; Tavernier J; Hill DE; Vidal M; Roth FP; Calderwood MA, 2020, 'A reference map of the human binary protein interactome', Nature, 580, pp. 402 - 408, http://dx.doi.org/10.1038/s41586-020-2188-x

Rodrigues DC; Mufteev M; Weatheritt RJ; Djuric U; Ha KCH; Ross PJ; Wei W; Piekna A; Sartori MA; Byres L; Mok RSF; Zaslavsky K; Pasceri P; Diamandis P; Morris Q; Blencowe BJ; Ellis J, 2020, 'Shifts in Ribosome Engagement Impact Key Gene Sets in Neurodevelopment and Ubiquitination in Rett Syndrome', Cell Reports, 30, pp. 4179 - 4196.e11, http://dx.doi.org/10.1016/j.celrep.2020.02.107

Gonatopoulos-Pournatzis T; Niibori R; Salter EW; Weatheritt RJ; Tsang B; Farhangmehr S; Liang X; Braunschweig U; Roth J; Zhang S; Henderson T; Sharma E; Quesnel-Vallières M; Permanyer J; Maier S; Georgiou J; Irimia M; Sonenberg N; Forman-Kay JD; Gingras AC; Collingridge GL; Woodin MA; Cordes SP; Blencowe BJ, 2020, 'Autism-Misregulated eIF4G Microexons Control Synaptic Translation and Higher Order Cognitive Functions', Molecular Cell, 77, pp. 1176 - 1192.e16, http://dx.doi.org/10.1016/j.molcel.2020.01.006

Avgan N; Wang JI; Fernandez-Chamorro J; Weatheritt RJ, 2019, 'Multilayered control of exon acquisition permits the emergence of novel forms of regulatory control', Breast Cancer Research, 21, http://dx.doi.org/10.1186/s13059-019-1757-5

Quesnel-Vallières M; Weatheritt RJ; Cordes SP; Blencowe BJ, 2019, 'Autism spectrum disorder: insights into convergent mechanisms from transcriptomics', Nature Reviews Genetics, 20, pp. 51 - 63, http://dx.doi.org/10.1038/s41576-018-0066-2

Sterne-Weiler T; Weatheritt RJ; Best AJ; Ha KCH; Blencowe BJ, 2018, 'Efficient and Accurate Quantitative Profiling of Alternative Splicing Patterns of Any Complexity on a Laptop', Molecular Cell, 72, pp. 187 - 200.e6, http://dx.doi.org/10.1016/j.molcel.2018.08.018

Gueroussov S; Weatheritt RJ; O'Hanlon D; Lin ZY; Narula A; Gingras AC; Blencowe BJ, 2017, 'Regulatory Expansion in Mammals of Multivalent hnRNP Assemblies that Globally Control Alternative Splicing', Cell, 170, pp. 324 - 339.e23, http://dx.doi.org/10.1016/j.cell.2017.06.037

Sterne-Weiler T; Weatheritt R; Best A; Ha K; Blencowe B, 2017, 'Whippet: an efficient method for the detection and quantification of alternative splicing reveals extensive transcriptomic complexity', , http://dx.doi.org/10.1101/158519

Han H; Braunschweig U; Gonatopoulos-Pournatzis T; Weatheritt RJ; Hirsch CL; Ha KCH; Radovani E; Nabeel-Shah S; Sterne-Weiler T; Wang J; O'Hanlon D; Pan Q; Ray D; Zheng H; Vizeacoumar F; Datti A; Magomedova L; Cummins CL; Hughes TR; Greenblatt JF; Wrana JL; Moffat J; Blencowe BJ, 2017, 'Multilayered Control of Alternative Splicing Regulatory Networks by Transcription Factors', Molecular Cell, 65, pp. 539 - 553.e7, http://dx.doi.org/10.1016/j.molcel.2017.01.011

Weatheritt RJ; Sterne-Weiler T; Blencowe BJ, 2016, 'The ribosome-engaged landscape of alternative splicing', Nature Structural and Molecular Biology, 23, pp. 1117 - 1123, http://dx.doi.org/10.1038/nsmb.3317

Latysheva NS; Oates ME; Maddox L; Flock T; Gough J; Buljan M; Weatheritt RJ; Babu MM, 2016, 'Molecular Principles of Gene Fusion Mediated Rewiring of Protein Interaction Networks in Cancer', Molecular Cell, 63, pp. 579 - 592, http://dx.doi.org/10.1016/j.molcel.2016.07.008

Dominguez D; Tsai YH; Weatheritt R; Wang Y; Blencowe BJ; Wang Z, 2016, 'An extensive program of periodic alternative splicing linked to cell cycle progression', eLife, 5, http://dx.doi.org/10.7554/eLife.10288

Latysheva NS; Flock T; Weatheritt RJ; Chavali S; Babu MM, 2015, 'How do disordered regions achieve comparable functions to structured domains?', Protein Science, 24, pp. 909 - 922, http://dx.doi.org/10.1002/pro.2674

Irimia M; Weatheritt RJ; Ellis JD; Parikshak NN; Gonatopoulos-Pournatzis T; Babor M; Quesnel-Vallières M; Tapial J; Raj B; O'Hanlon D; Barrios-Rodiles M; Sternberg MJE; Cordes SP; Roth FP; Wrana JL; Geschwind DH; Blencowe BJ, 2014, 'A highly conserved program of neuronal microexons is misregulated in autistic brains', Cell, 159, pp. 1511 - 1523, http://dx.doi.org/10.1016/j.cell.2014.11.035

Weatheritt RJ; Gibson TJ; Babu MM, 2014, 'Asymmetric mRNA localization contributes to fidelity and sensitivity of spatially localized systems', Nature Structural and Molecular Biology, 21, pp. 833 - 839, http://dx.doi.org/10.1038/nsmb.2876

Van Der Lee R; Buljan M; Lang B; Weatheritt RJ; Daughdrill GW; Dunker AK; Fuxreiter M; Gough J; Gsponer J; Jones DT; Kim PM; Kriwacki RW; Oldfield CJ; Pappu RV; Tompa P; Uversky VN; Wright PE; Babu MM, 2014, 'Classification of intrinsically disordered regions and proteins', Chemical Reviews, 114, pp. 6589 - 6631, http://dx.doi.org/10.1021/cr400525m

Van Roey K; Uyar B; Weatheritt RJ; Dinkel H; Seiler M; Budd A; Gibson TJ; Davey NE, 2014, 'Short linear motifs: Ubiquitous and functionally diverse protein interaction modules directing cell regulation', Chemical Reviews, 114, pp. 6733 - 6778, http://dx.doi.org/10.1021/cr400585q

Flock T; Weatheritt RJ; Latysheva NS; Babu MM, 2014, 'Controlling entropy to tune the functions of intrinsically disordered regions', Current Opinion in Structural Biology, 26, pp. 62 - 72, http://dx.doi.org/10.1016/j.sbi.2014.05.007

Davey NE; Van Roey K; Weatheritt RJ; Toedt G; Uyar B; Altenberg B; Budd A; Diella F; Dinkel H; Gibson TJ, 2014, 'Erratum: Attributes of short linear motifs (Molecular BioSystems (2012) 8 (268-281) DOI: 10.1039/C1MB05231D)', Molecular BioSystems, 10, pp. 2481, http://dx.doi.org/10.1039/C4MB90028F

Uyar B; Weatheritt RJ; Dinkel H; Davey NE; Gibson TJ, 2014, 'Proteome-wide analysis of human disease mutations in short linear motifs: Neglected players in cancer?', Molecular BioSystems, 10, pp. 2626 - 2642, http://dx.doi.org/10.1039/c4mb00290c

Dinkel H; Van Roey K; Michael S; Davey NE; Weatheritt RJ; Born D; Speck T; Krüger D; Grebnev G; Kubań M; Strumillo M; Uyar B; Budd A; Altenberg B; Seiler M; Chemes LB; Glavina J; Sánchez IE; Diella F; Gibson TJ, 2014, 'The eukaryotic linear motif resource ELM: 10 years and counting', Nucleic Acids Research, 42, http://dx.doi.org/10.1093/nar/gkt1047

Reyes A; Anders S; Weatheritt RJ; Gibson TJ; Steinmetz LM; Huber W, 2013, 'Drift and conservation of differential exon usage across tissues in primate species', Proceedings of the National Academy of Sciences of the United States of America, 110, pp. 15377 - 15382, http://dx.doi.org/10.1073/pnas.1307202110

Van Roey K; Dinkel H; Weatheritt RJ; Gibson TJ; Davey NE, 2013, 'The switches.ELM resource: A compendium of conditional regulatory interaction interfaces', Science Signaling, 6, http://dx.doi.org/10.1126/scisignal.2003345

Weatheritt RJ; Babu MM, 2013, 'The hidden codes that shape protein evolution', Science, 342, pp. 1325 - 1326, http://dx.doi.org/10.1126/science.1248425

Weatheritt RJ; Davey NE; Gibson TJ, 2012, 'Linear motifs confer functional diversity onto splice variants', Nucleic Acids Research, 40, pp. 7123 - 7131, http://dx.doi.org/10.1093/nar/gks442

Weatheritt RJ; Gibson TJ, 2012, 'Linear motifs: Lost in (pre)translation', Trends in Biochemical Sciences, 37, pp. 333 - 341, http://dx.doi.org/10.1016/j.tibs.2012.05.001

Weatheritt RJ; Jehl P; Dinkel H; Gibson TJ, 2012, 'iELM-a web server to explore short linear motif-mediated interactions', Nucleic Acids Research, 40, pp. w364 - w369, http://dx.doi.org/10.1093/nar/gks444

Weatheritt RJ; Luck K; Petsalaki E; Davey NE; Gibson TJ, 2012, 'The identification of short linear motif-mediated interfaces within the human interactome', Bioinformatics, 28, pp. 976 - 982, http://dx.doi.org/10.1093/bioinformatics/bts072

Davey NE; Van Roey K; Weatheritt RJ; Toedt G; Uyar B; Altenberg B; Budd A; Diella F; Dinkel H; Gibson TJ, 2012, 'Attributes of short linear motifs', Molecular BioSystems, 8, pp. 268 - 281, http://dx.doi.org/10.1039/c1mb05231d

Dinkel H; Michael S; Weatheritt RJ; Davey NE; Van Roey K; Altenberg B; Toedt G; Uyar B; Seiler M; Budd A; Jödicke L; Dammert MA; Schroeter C; Hammer M; Schmidt T; Jehl P; McGuigan C; Dymecka M; Chica C; Luck K; Via A; Chatr-Aryamontri A; Haslam N; Grebnev G; Edwards RJ; Steinmetz MO; Meiselbach H; Diella F; Gibson TJ, 2012, 'ELM - The database of eukaryotic linear motifs', Nucleic Acids Research, 40, http://dx.doi.org/10.1093/nar/gkr1064

Gould CM; Diella F; Via A; Puntervoll P; Gemünd C; Chabanis-Davidson S; Michael S; Sayadi A; Bryne JC; Chica C; Seiler M; Davey NE; Haslam N; Weatheritt RJ; Budd A; Hughes T; Paś J; Rychlewski L; Travé G; Aasland R; Helmer-Citterich M; Linding R; Gibson TJ, 2009, 'ELM: The status of the 2010 eukaryotic linear motif resource', Nucleic Acids Research, 38, http://dx.doi.org/10.1093/nar/gkp1016

Yanashima R; Kitagawa N; Matsubara Y; Weatheritt R; Oka K; Kikuchi S; Tomita M; Ishizaki S, 2009, 'Network features and pathway analyses of a signal transduction cascade', Frontiers in Neuroinformatics, 3, http://dx.doi.org/10.3389/neuro.11.013.2009

Krumbholz K; Nobis EA; Weatheritt RJ; Fink GR, 2009, 'Executive control of spatial attention shifts in the auditory compared to the visual modality', Human Brain Mapping, 30, pp. 1457 - 1469, http://dx.doi.org/10.1002/hbm.20615

Yanashima R; Kitagawa N; Matsubara Y; Weatheritt R; Oka K; Kikuchi S; Tomita M; Ishizaki S, 2009, 'Network Features and Pathway Analyses of a Signal Transduction Cascade.', Front Neuroinform, 3, pp. 13, http://dx.doi.org/10.3389/neuro.11/013.2009

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