Koga Y - Search Results

1

Interactive analysis of single-cell data using flexible workflows with SCTK2.

Wang Y, Sarfraz I, Pervaiz N, Hong R, Koga Y, Akavoor V, Cao X, Alabdullatif S, Zaib SA, Wang Z, Jansen F, Yajima M, Johnson WE, Campbell JD. Wang Y, et al. Among authors: koga y. Patterns (N Y). 2023 Aug 3;4(8):100814. doi: 10.1016/j.patter.2023.100814. eCollection 2023 Aug 11. Patterns (N Y). 2023. PMID: 37602214 Free PMC article.

2

Comprehensive generation, visualization, and reporting of quality control metrics for single-cell RNA sequencing data.

Hong R, Koga Y, Bandyadka S, Leshchyk A, Wang Y, Akavoor V, Cao X, Sarfraz I, Wang Z, Alabdullatif S, Jansen F, Yajima M, Johnson WE, Campbell JD. Hong R, et al. Among authors: koga y. Nat Commun. 2022 Mar 30;13(1):1688. doi: 10.1038/s41467-022-29212-9. Nat Commun. 2022. PMID: 35354805 Free PMC article.

3

Decontamination of ambient RNA in single-cell RNA-seq with DecontX.

Yang S, Corbett SE, Koga Y, Wang Z, Johnson WE, Yajima M, Campbell JD. Yang S, et al. Among authors: koga y. Genome Biol. 2020 Mar 5;21(1):57. doi: 10.1186/s13059-020-1950-6. Genome Biol. 2020. PMID: 32138770 Free PMC article.

4

Celda: a Bayesian model to perform co-clustering of genes into modules and cells into subpopulations using single-cell RNA-seq data.

Wang Z, Yang S, Koga Y, Corbett SE, Shea CV, Johnson WE, Yajima M, Campbell JD. Wang Z, et al. Among authors: koga y. NAR Genom Bioinform. 2022 Sep 13;4(3):lqac066. doi: 10.1093/nargab/lqac066. eCollection 2022 Sep. NAR Genom Bioinform. 2022. PMID: 36110899 Free PMC article.

5

Pipeliner: A Nextflow-Based Framework for the Definition of Sequencing Data Processing Pipelines.

Federico A, Karagiannis T, Karri K, Kishore D, Koga Y, Campbell JD, Monti S. Federico A, et al. Among authors: koga y. Front Genet. 2019 Jun 28;10:614. doi: 10.3389/fgene.2019.00614. eCollection 2019. Front Genet. 2019. PMID: 31316552 Free PMC article.

6

Elevated T cell repertoire diversity is associated with progression of lung squamous cell premalignant lesions.

Maoz A, Merenstein C, Koga Y, Potter A, Gower AC, Liu G, Zhang S, Liu H, Stevenson C, Spira A, Reid ME, Campbell JD, Mazzilli SA, Lenburg ME, Beane J. Maoz A, et al. Among authors: koga y. J Immunother Cancer. 2021 Sep;9(9):e002647. doi: 10.1136/jitc-2021-002647. J Immunother Cancer. 2021. PMID: 34580161 Free PMC article.

7

Genomic Profiling of Prostate Cancers from Men with African and European Ancestry.

Koga Y, Song H, Chalmers ZR, Newberg J, Kim E, Carrot-Zhang J, Piou D, Polak P, Abdulkadir SA, Ziv E, Meyerson M, Frampton GM, Campbell JD, Huang FW. Koga Y, et al. Clin Cancer Res. 2020 Sep 1;26(17):4651-4660. doi: 10.1158/1078-0432.CCR-19-4112. Epub 2020 Jul 10. Clin Cancer Res. 2020. PMID: 32651179 Free PMC article.

8

Whole-genome doubling confers unique genetic vulnerabilities on tumour cells.

Quinton RJ, DiDomizio A, Vittoria MA, Kotýnková K, Ticas CJ, Patel S, Koga Y, Vakhshoorzadeh J, Hermance N, Kuroda TS, Parulekar N, Taylor AM, Manning AL, Campbell JD, Ganem NJ. Quinton RJ, et al. Among authors: koga y. Nature. 2021 Feb;590(7846):492-497. doi: 10.1038/s41586-020-03133-3. Epub 2021 Jan 27. Nature. 2021. PMID: 33505027 Free PMC article.

9

Publisher Correction: Whole-genome doubling confers unique genetic vulnerabilities on tumour cells.

Quinton RJ, DiDomizio A, Vittoria MA, Kotýnková K, Ticas CJ, Patel S, Koga Y, Vakhshoorzadeh J, Hermance N, Kuroda TS, Parulekar N, Taylor AM, Manning AL, Campbell JD, Ganem NJ. Quinton RJ, et al. Among authors: koga y. Nature. 2021 May;593(7860):E15. doi: 10.1038/s41586-021-03591-3. Nature. 2021. PMID: 33976417 No abstract available.

10

Genetic legacy of ancient hunter-gatherer Jomon in Japanese populations.

Yamamoto K, Namba S, Sonehara K, Suzuki K, Sakaue S, Cooke NP, Higashiue S, Kobayashi S, Afuso H, Matsuura K, Mitsumoto Y, Fujita Y, Tokuda T; Biobank Japan Project; Matsuda K, Gakuhari T, Yamauchi T, Kadowaki T, Nakagome S, Okada Y. Yamamoto K, et al. Nat Commun. 2024 Nov 12;15(1):9780. doi: 10.1038/s41467-024-54052-0. Nat Commun. 2024. PMID: 39532881

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