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Distinct clonal identities of B-ALLs arising after lenolidomide therapy for multiple myeloma.
Barnell EK, Skidmore ZL, Newcomer KF, Chavez M, Campbell KM, Cotto KC, Spies NC, Ruzinova MB, Wang T, Abro B, Kreisel F, Parikh BA, Duncavage EJ, Frater JL, Lee YS, Hassan A, King JA, Kohnen DR, Fiala MA, Welch JS, Uy GL, Vij K, Vij R, Griffith M, Griffith OL, Wartman LD. Barnell EK, et al. Among authors: cotto kc. Blood Adv. 2023 Jan 24;7(2):236-245. doi: 10.1182/bloodadvances.2022007496. Blood Adv. 2023. PMID: 36251745 Free PMC article.
ORegAnno 3.0: a community-driven resource for curated regulatory annotation.
Lesurf R, Cotto KC, Wang G, Griffith M, Kasaian K, Jones SJ, Montgomery SB, Griffith OL; Open Regulatory Annotation Consortium. Lesurf R, et al. Among authors: cotto kc. Nucleic Acids Res. 2016 Jan 4;44(D1):D126-32. doi: 10.1093/nar/gkv1203. Epub 2015 Nov 17. Nucleic Acids Res. 2016. PMID: 26578589 Free PMC article.
Standard operating procedure for somatic variant refinement of sequencing data with paired tumor and normal samples.
Barnell EK, Ronning P, Campbell KM, Krysiak K, Ainscough BJ, Sheta LM, Pema SP, Schmidt AD, Richters M, Cotto KC, Danos AM, Ramirez C, Skidmore ZL, Spies NC, Hundal J, Sediqzad MS, Kunisaki J, Gomez F, Trani L, Matlock M, Wagner AH, Swamidass SJ, Griffith M, Griffith OL. Barnell EK, et al. Among authors: cotto kc. Genet Med. 2019 Apr;21(4):972-981. doi: 10.1038/s41436-018-0278-z. Epub 2018 Oct 5. Genet Med. 2019. PMID: 30287923 Free PMC article.
Open-Sourced CIViC Annotation Pipeline to Identify and Annotate Clinically Relevant Variants Using Single-Molecule Molecular Inversion Probes.
Barnell EK, Waalkes A, Mosior MC, Penewit K, Cotto KC, Danos AM, Sheta LM, Campbell KM, Krysiak K, Rieke D, Spies NC, Skidmore ZL, Pritchard CC, Fehniger TA, Uppaluri R, Govindan R, Griffith M, Salipante SJ, Griffith OL. Barnell EK, et al. Among authors: cotto kc. JCO Clin Cancer Inform. 2019 Oct;3:1-12. doi: 10.1200/CCI.19.00077. JCO Clin Cancer Inform. 2019. PMID: 31618044 Free PMC article.
Genomic and transcriptomic somatic alterations of hepatocellular carcinoma in non-cirrhotic livers.
Skidmore ZL, Kunisaki J, Lin Y, Cotto KC, Barnell EK, Hundal J, Krysiak K, Magrini V, Trani L, Walker JR, Fulton R, Brunt EM, Miller CA, Wilson RK, Mardis ER, Griffith M, Chapman W, Griffith OL. Skidmore ZL, et al. Among authors: cotto kc. Cancer Genet. 2022 Jun;264-265:90-99. doi: 10.1016/j.cancergen.2022.04.002. Epub 2022 Apr 30. Cancer Genet. 2022. PMID: 35568002 Free PMC article.
In silico epitope prediction analyses highlight the potential for distracting antigen immunodominance with allogeneic cancer vaccines.
James CA, Ronning P, Cullinan D, Cotto KC, Barnell EK, Campbell KM, Skidmore ZL, Sanford DE, Goedegebuure SP, Gillanders WE, Griffith OL, Hawkins WG, Griffith M. James CA, et al. Among authors: cotto kc. Cancer Res Commun. 2021 Nov;1(2):115-126. doi: 10.1158/2767-9764.crc-21-0029. Cancer Res Commun. 2021. PMID: 35611186 Free PMC article.
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