Chen M - Search Results

1

Alignment of single-cell RNA-seq samples without overcorrection using kernel density matching.

Chen M, Zhan Q, Mu Z, Wang L, Zheng Z, Miao J, Zhu P, Li YI. Chen M, et al. Genome Res. 2021 Apr;31(4):698-712. doi: 10.1101/gr.261115.120. Epub 2021 Mar 19. Genome Res. 2021. PMID: 33741686 Free PMC article.

2

SynthEx: a synthetic-normal-based DNA sequencing tool for copy number alteration detection and tumor heterogeneity profiling.

Silva GO, Siegel MB, Mose LE, Parker JS, Sun W, Perou CM, Chen M. Silva GO, et al. Among authors: chen m. Genome Biol. 2017 Apr 8;18(1):66. doi: 10.1186/s13059-017-1193-3. Genome Biol. 2017. PMID: 28390427 Free PMC article.

3

Controlling for Confounding Effects in Single Cell RNA Sequencing Studies Using both Control and Target Genes.

Chen M, Zhou X. Chen M, et al. Sci Rep. 2017 Oct 19;7(1):13587. doi: 10.1038/s41598-017-13665-w. Sci Rep. 2017. PMID: 29051597 Free PMC article.

4

VIPER: variability-preserving imputation for accurate gene expression recovery in single-cell RNA sequencing studies.

Chen M, Zhou X. Chen M, et al. Genome Biol. 2018 Nov 12;19(1):196. doi: 10.1186/s13059-018-1575-1. Genome Biol. 2018. PMID: 30419955 Free PMC article.

5

SNV identification from single-cell RNA sequencing data.

Schnepp PM, Chen M, Keller ET, Zhou X. Schnepp PM, et al. Among authors: chen m. Hum Mol Genet. 2019 Nov 1;28(21):3569-3583. doi: 10.1093/hmg/ddz207. Hum Mol Genet. 2019. PMID: 31504520 Free PMC article.

6

RADAR: differential analysis of MeRIP-seq data with a random effect model.

Zhang Z, Zhan Q, Eckert M, Zhu A, Chryplewicz A, De Jesus DF, Ren D, Kulkarni RN, Lengyel E, He C, Chen M. Zhang Z, et al. Among authors: chen m. Genome Biol. 2019 Dec 23;20(1):294. doi: 10.1186/s13059-019-1915-9. Genome Biol. 2019. PMID: 31870409 Free PMC article.

7

Integrative differential expression and gene set enrichment analysis using summary statistics for scRNA-seq studies.

Ma Y, Sun S, Shang X, Keller ET, Chen M, Zhou X. Ma Y, et al. Among authors: chen m. Nat Commun. 2020 Mar 27;11(1):1585. doi: 10.1038/s41467-020-15298-6. Nat Commun. 2020. PMID: 32221292 Free PMC article.

8

REPIC: a database for exploring the N⁶-methyladenosine methylome.

Liu S, Zhu A, He C, Chen M. Liu S, et al. Among authors: chen m. Genome Biol. 2020 Apr 28;21(1):100. doi: 10.1186/s13059-020-02012-4. Genome Biol. 2020. PMID: 32345346 Free PMC article.

9

Demystifying "drop-outs" in single-cell UMI data.

Kim TH, Zhou X, Chen M. Kim TH, et al. Among authors: chen m. Genome Biol. 2020 Aug 6;21(1):196. doi: 10.1186/s13059-020-02096-y. Genome Biol. 2020. PMID: 32762710 Free PMC article.

10

Effective and scalable single-cell data alignment with non-linear canonical correlation analysis.

Hu J, Chen M, Zhou X. Hu J, et al. Among authors: chen m. Nucleic Acids Res. 2022 Feb 28;50(4):e21. doi: 10.1093/nar/gkab1147. Nucleic Acids Res. 2022. PMID: 34871454 Free PMC article.

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