• Reference Citation Analysis
  • v
  • v
  • Find an Article
Find an Article PDF (4826761)   Today's Articles (6857)
For: Qian K, Fu S, Li H, Li WV. scINSIGHT for interpreting single-cell gene expression from biologically heterogeneous data. Genome Biol 2022;23:82. [PMID: 35313930 PMCID: PMC8935111 DOI: 10.1186/s13059-022-02649-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2021] [Accepted: 03/07/2022] [Indexed: 12/30/2022]  Open
Number Cited by Other Article(s)
1
Zheng H, Sarkar H, Raphael BJ. Joint imputation and deconvolution of gene expression across spatial transcriptomics platforms. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.02.17.638195. [PMID: 40027720 PMCID: PMC11870578 DOI: 10.1101/2025.02.17.638195] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 03/05/2025]
2
Kim N, Park S, Jo A, Eum HH, Kim HK, Lee K, Cho JH, Ku BM, Jung HA, Sun JM, Lee SH, Ahn JS, Lee JI, Choi JW, Jeong D, Na M, Kang H, Kim JY, Choi JK, Lee HO, Ahn MJ. Unveiling the influence of tumor and immune signatures on immune checkpoint therapy in advanced lung cancer. eLife 2024;13:RP98366. [PMID: 39514276 PMCID: PMC11548875 DOI: 10.7554/elife.98366] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2024]  Open
3
Zhao K, So HC, Lin Z. scParser: sparse representation learning for scalable single-cell RNA sequencing data analysis. Genome Biol 2024;25:223. [PMID: 39152499 PMCID: PMC11328435 DOI: 10.1186/s13059-024-03345-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Accepted: 07/23/2024] [Indexed: 08/19/2024]  Open
4
Ozturk K, Panwala R, Sheen J, Ford K, Jayne N, Portell A, Zhang DE, Hutter S, Haferlach T, Ideker T, Mali P, Carter H. Interface-guided phenotyping of coding variants in the transcription factor RUNX1. Cell Rep 2024;43:114436. [PMID: 38968069 PMCID: PMC11345852 DOI: 10.1016/j.celrep.2024.114436] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2023] [Revised: 05/15/2024] [Accepted: 06/19/2024] [Indexed: 07/07/2024]  Open
5
Bilous M, Hérault L, Gabriel AA, Teleman M, Gfeller D. Building and analyzing metacells in single-cell genomics data. Mol Syst Biol 2024;20:744-766. [PMID: 38811801 PMCID: PMC11220014 DOI: 10.1038/s44320-024-00045-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2024] [Revised: 05/03/2024] [Accepted: 05/08/2024] [Indexed: 05/31/2024]  Open
6
Zhang W, Yu R, Xu Z, Li J, Gao W, Jiang M, Dai Q. scCompressSA: dual-channel self-attention based deep autoencoder model for single-cell clustering by compressing gene-gene interactions. BMC Genomics 2024;25:423. [PMID: 38684946 PMCID: PMC11059774 DOI: 10.1186/s12864-024-10286-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Accepted: 04/04/2024] [Indexed: 05/02/2024]  Open
7
Liu R, Qian K, He X, Li H. Integration of scRNA-seq data by disentangled representation learning with condition domain adaptation. BMC Bioinformatics 2024;25:116. [PMID: 38493095 PMCID: PMC10944609 DOI: 10.1186/s12859-024-05706-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2023] [Accepted: 02/15/2024] [Indexed: 03/18/2024]  Open
8
Fan Z, Sun J, Thorpe H, Lee S, Kim S, Park HJ. Deep neural network learning biological condition information refines gene-expression-based cell subtypes. Brief Bioinform 2023;25:bbad512. [PMID: 38233089 PMCID: PMC10794113 DOI: 10.1093/bib/bbad512] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Revised: 11/18/2023] [Accepted: 12/05/2023] [Indexed: 01/19/2024]  Open
9
Liu J, Kreimer A, Li WV. Differential variability analysis of single-cell gene expression data. Brief Bioinform 2023;24:bbad294. [PMID: 37598422 PMCID: PMC10516347 DOI: 10.1093/bib/bbad294] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Revised: 07/18/2023] [Accepted: 07/29/2023] [Indexed: 08/22/2023]  Open
10
Ozturk K, Panwala R, Sheen J, Ford K, Payne N, Zhang DE, Hutter S, Haferlach T, Ideker T, Mali P, Carter H. Interface-guided phenotyping of coding variants in the transcription factor RUNX1 with SEUSS. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.08.03.551876. [PMID: 37577681 PMCID: PMC10418284 DOI: 10.1101/2023.08.03.551876] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/15/2023]
11
Zhang Z, Sun H, Mariappan R, Chen X, Chen X, Jain MS, Efremova M, Teichmann SA, Rajan V, Zhang X. scMoMaT jointly performs single cell mosaic integration and multi-modal bio-marker detection. Nat Commun 2023;14:384. [PMID: 36693837 PMCID: PMC9873790 DOI: 10.1038/s41467-023-36066-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Accepted: 01/13/2023] [Indexed: 01/26/2023]  Open
12
Qian K, Fu S, Li H, Li WV. The scINSIGHT Package for Integrating Single-Cell RNA-Seq Data from Different Biological Conditions. J Comput Biol 2022;29:1233-1236. [PMID: 35920848 PMCID: PMC9700338 DOI: 10.1089/cmb.2022.0244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
13
Qian K, Fu S, Li H, Li WV. Author Correction: scINSIGHT for interpreting single-cell gene expression from biologically heterogeneous data. Genome Biol 2022;23:104. [PMID: 35449066 PMCID: PMC9027830 DOI: 10.1186/s13059-022-02672-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
PrevPage 1 of 1 1Next
© 2004-2025 Baishideng Publishing Group Inc. All rights reserved. 7041 Koll Center Parkway, Suite 160, Pleasanton, CA 94566, USA