Calibration of computational tools for missense variant pathogenicity classification and ClinGen recommendations for PP3/BP4 criteria.
American Journal Of Human Genetics
Pejaver, Vikas V; Byrne, Alicia B AB; Feng, Bing-Jian BJ; Pagel, Kymberleigh A KA; Mooney, Sean D SD; Karchin, Rachel R; O'Donnell-Luria, Anne A; Harrison, Steven M SM; Tavtigian, Sean V SV; Greenblatt, Marc S MS; Biesecker, Leslie G LG; Radivojac, Predrag P; Brenner, Steven E SE; ,
Publication Date: 2022-12-01
Variant appearance in text: PTEN: T167N; rs397514559
Integrated gene analyses of de novo variants from 46,612 trios with autism and developmental disorders.
Proceedings Of The National Academy Of Sciences Of The United States Of America
Wang, Tianyun T; Kim, Chang N CN; Bakken, Trygve E TE; Gillentine, Madelyn A MA; Henning, Barbara B; Mao, Yafei Y; Gilissen, Christian C; , ; Nowakowski, Tomasz J TJ; Eichler, Evan E EE
Publication Date: 2022-11-15
Variant appearance in text: PTEN: 500C>A; Thr167Asn
KLF3 and PAX6 are candidate driver genes in late-stage, MSI-hypermutated endometrioid endometrial carcinomas.
Plos One
Rudd, Meghan L ML; Hansen, Nancy F NF; Zhang, Xiaolu X; Urick, Mary Ellen ME; Zhang, Suiyuan S; Merino, Maria J MJ; , ; Mullikin, James C JC; Brody, Lawrence C LC; Bell, Daphne W DW
KLF3 and PAX6 are candidate driver genes in late-stage, MSI-hypermutated endometrioid endometrial carcinomas.
Plos One
Rudd, Meghan L ML; Hansen, Nancy F NF; Zhang, Xiaolu X; Urick, Mary Ellen ME; Zhang, Suiyuan S; Merino, Maria J MJ; , ; Mullikin, James C JC; Brody, Lawrence C LC; Bell, Daphne W DW
Single-cell transcriptome identifies molecular subtype of autism spectrum disorder impacted by de novo loss-of-function variants regulating glial cells.
Human Genomics
Nassir, Nasna N; Bankapur, Asma A; Samara, Bisan B; Ali, Abdulrahman A; Ahmed, Awab A; Inuwa, Ibrahim M IM; Zarrei, Mehdi M; Safizadeh Shabestari, Seyed Ali SA; AlBanna, Ammar A; Howe, Jennifer L JL; Berdiev, Bakhrom K BK; Scherer, Stephen W SW; Woodbury-Smith, Marc M; Uddin, Mohammed M
Publication Date: 2021-11-21
Variant appearance in text: PTEN: T167N; rs397514559
Systematic Review and Bioinformatic Analysis of microRNA Expression in Autism Spectrum Disorder Identifies Pathways Associated With Cancer, Metabolism, Cell Signaling, and Cell Adhesion.
De novo missense variants disrupting protein-protein interactions affect risk for autism through gene co-expression and protein networks in neuronal cell types.
Multi-model functionalization of disease-associated PTEN missense mutations identifies multiple molecular mechanisms underlying protein dysfunction.
Nature Communications
Post, Kathryn L KL; Belmadani, Manuel M; Ganguly, Payel P; Meili, Fabian F; Dingwall, Riki R; McDiarmid, Troy A TA; Meyers, Warren M WM; Herrington, Caitlin C; Young, Barry P BP; Callaghan, Daniel B DB; Rogic, Sanja S; Edwards, Matthew M; Niciforovic, Ana A; Cau, Alessandro A; Rankin, Catharine H CH; O'Connor, Timothy P TP; Bamji, Shernaz X SX; Loewen, Christopher J R CJR; Allan, Douglas W DW; Pavlidis, Paul P; Haas, Kurt K
The evolution of a series of behavioral traits is associated with autism-risk genes in cavefish.
Bmc Evolutionary Biology
Yoshizawa, Masato M; Settle, Alexander A; Hermosura, Meredith C MC; Tuttle, Lillian J LJ; Cetraro, Nicolas N; Passow, Courtney N CN; McGaugh, Suzanne E SE
Somatic POLE exonuclease domain mutations are early events in sporadic endometrial and colorectal carcinogenesis, determining driver mutational landscape, clonal neoantigen burden and immune response.
The Journal Of Pathology
Temko, Daniel D; Van Gool, Inge C IC; Rayner, Emily E; Glaire, Mark M; Makino, Seiko S; Brown, Matthew M; Chegwidden, Laura L; Palles, Claire C; Depreeuw, Jeroen J; Beggs, Andrew A; Stathopoulou, Chaido C; Mason, John J; Baker, Ann-Marie AM; Williams, Marc M; Cerundolo, Vincenzo V; Rei, Margarida M; Taylor, Jenny C JC; Schuh, Anna A; Ahmed, Ahmed A; Amant, Frédéric F; Lambrechts, Diether D; Smit, Vincent Thbm VT; Bosse, Tjalling T; Graham, Trevor A TA; Church, David N DN; Tomlinson, Ian I
Refining the role of de novo protein-truncating variants in neurodevelopmental disorders by using population reference samples.
Nature Genetics
Kosmicki, Jack A JA; Samocha, Kaitlin E KE; Howrigan, Daniel P DP; Sanders, Stephan J SJ; Slowikowski, Kamil K; Lek, Monkol M; Karczewski, Konrad J KJ; Cutler, David J DJ; Devlin, Bernie B; Roeder, Kathryn K; Buxbaum, Joseph D JD; Neale, Benjamin M BM; MacArthur, Daniel G DG; Wall, Dennis P DP; Robinson, Elise B EB; Daly, Mark J MJ
Publication Date: 2017-04
Variant appearance in text: PTEN: 500C>A; Thr167Asn
Recurrent de novo mutations implicate novel genes underlying simplex autism risk.
Nature Communications
O'Roak, B J BJ; Stessman, H A HA; Boyle, E A EA; Witherspoon, K T KT; Martin, B B; Lee, C C; Vives, L L; Baker, C C; Hiatt, J B JB; Nickerson, D A DA; Bernier, R R; Shendure, J J; Eichler, E E EE
Publication Date: 2014-11-24
Variant appearance in text: PTEN: 500C>A; Thr167Asn
O'Roak, Brian J BJ; Vives, Laura L; Fu, Wenqing W; Egertson, Jarrett D JD; Stanaway, Ian B IB; Phelps, Ian G IG; Carvill, Gemma G; Kumar, Akash A; Lee, Choli C; Ankenman, Katy K; Munson, Jeff J; Hiatt, Joseph B JB; Turner, Emily H EH; Levy, Roie R; O'Day, Diana R DR; Krumm, Niklas N; Coe, Bradley P BP; Martin, Beth K BK; Borenstein, Elhanan E; Nickerson, Deborah A DA; Mefford, Heather C HC; Doherty, Dan D; Akey, Joshua M JM; Bernier, Raphael R; Eichler, Evan E EE; Shendure, Jay J
Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations.
Nature
O'Roak, Brian J BJ; Vives, Laura L; Girirajan, Santhosh S; Karakoc, Emre E; Krumm, Niklas N; Coe, Bradley P BP; Levy, Roie R; Ko, Arthur A; Lee, Choli C; Smith, Joshua D JD; Turner, Emily H EH; Stanaway, Ian B IB; Vernot, Benjamin B; Malig, Maika M; Baker, Carl C; Reilly, Beau B; Akey, Joshua M JM; Borenstein, Elhanan E; Rieder, Mark J MJ; Nickerson, Deborah A DA; Bernier, Raphael R; Shendure, Jay J; Eichler, Evan E EE