• Reference Citation Analysis
  • v
  • v
  • Find an Article
Find an Article PDF (5080302)   Today's Articles (5075)
For: Rowland B, Huh R, Hou Z, Crowley C, Wen J, Shen Y, Hu M, Giusti-Rodríguez P, Sullivan PF, Li Y. THUNDER: A reference-free deconvolution method to infer cell type proportions from bulk Hi-C data. PLoS Genet 2022;18:e1010102. [PMID: 35259165 PMCID: PMC8932604 DOI: 10.1371/journal.pgen.1010102] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Revised: 03/18/2022] [Accepted: 02/14/2022] [Indexed: 11/30/2022]  Open
Number Cited by Other Article(s)
1
Wen J, Sun Q, Huang L, Zhou L, Doyle MF, Ekunwe L, Durda P, Olson NC, Reiner AP, Li Y, Raffield LM. Gene expression and splicing QTL analysis of blood cells in African American participants from the Jackson Heart Study. Genetics 2024;228:iyae098. [PMID: 39056362 PMCID: PMC11373511 DOI: 10.1093/genetics/iyae098] [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: 05/07/2024] [Accepted: 06/05/2024] [Indexed: 07/28/2024]  Open
2
Liu W, Zhong W, Giusti-Rodríguez P, Jiang Z, Wang GW, Sun H, Hu M, Li Y. SnapHiC-G: identifying long-range enhancer-promoter interactions from single-cell Hi-C data via a global background model. Brief Bioinform 2024;25:bbae426. [PMID: 39222061 PMCID: PMC11367764 DOI: 10.1093/bib/bbae426] [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: 01/20/2024] [Revised: 07/05/2024] [Accepted: 08/13/2024] [Indexed: 09/04/2024]  Open
3
Murtaza G, Butaney B, Wagner J, Singh R. scGrapHiC: deep learning-based graph deconvolution for Hi-C using single cell gene expression. Bioinformatics 2024;40:i490-i500. [PMID: 38940151 PMCID: PMC11256916 DOI: 10.1093/bioinformatics/btae223] [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] [Indexed: 06/29/2024]  Open
4
Raffo A, Paulsen J. The shape of chromatin: insights from computational recognition of geometric patterns in Hi-C data. Brief Bioinform 2023;24:bbad302. [PMID: 37646128 PMCID: PMC10516369 DOI: 10.1093/bib/bbad302] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Revised: 07/05/2023] [Accepted: 08/03/2023] [Indexed: 09/01/2023]  Open
5
Wang J, Lu L, Zheng S, Wang D, Jin L, Zhang Q, Li M, Zhang Z. DeCOOC Deconvoluted Hi-C Map Characterizes the Chromatin Architecture of Cells in Physiologically Distinctive Tissues. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2023;10:e2301058. [PMID: 37515382 PMCID: PMC10520690 DOI: 10.1002/advs.202301058] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Revised: 07/06/2023] [Indexed: 07/30/2023]
6
Gilbert BR, Thornburg ZR, Brier TA, Stevens JA, Grünewald F, Stone JE, Marrink SJ, Luthey-Schulten Z. Dynamics of chromosome organization in a minimal bacterial cell. Front Cell Dev Biol 2023;11:1214962. [PMID: 37621774 PMCID: PMC10445541 DOI: 10.3389/fcell.2023.1214962] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2023] [Accepted: 07/10/2023] [Indexed: 08/26/2023]  Open
7
Wen J, Sun Q, Huang L, Zhou L, Doyle MF, Ekunwe L, Olson NC, Reiner AP, Li Y, Raffield LM. Gene Expression and Splicing QTL Analysis of Blood Cells in African American Participants from the Jackson Heart Study. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.04.26.538455. [PMID: 37163084 PMCID: PMC10168308 DOI: 10.1101/2023.04.26.538455] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]
8
Zhong W, Liu W, Chen J, Sun Q, Hu M, Li Y. Understanding the function of regulatory DNA interactions in the interpretation of non-coding GWAS variants. Front Cell Dev Biol 2022;10:957292. [PMID: 36060805 PMCID: PMC9437546 DOI: 10.3389/fcell.2022.957292] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Accepted: 07/21/2022] [Indexed: 01/11/2023]  Open
9
Lyu C, Huang M, Liu N, Chen Z, Lupo PJ, Tycko B, Witte JS, Hobbs CA, Li M. Random field modeling of multi-trait multi-locus association for detecting methylation quantitative trait loci. Bioinformatics 2022;38:3853-3862. [PMID: 35781319 PMCID: PMC9364381 DOI: 10.1093/bioinformatics/btac443] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2021] [Revised: 06/28/2022] [Accepted: 06/30/2022] [Indexed: 12/24/2022]  Open
10
Liu W, Zhong W, Chen J, Huang B, Hu M, Li Y. Understanding Regulatory Mechanisms of Brain Function and Disease through 3D Genome Organization. Genes (Basel) 2022;13:586. [PMID: 35456393 PMCID: PMC9027261 DOI: 10.3390/genes13040586] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Revised: 03/17/2022] [Accepted: 03/23/2022] [Indexed: 02/01/2023]  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