467 related articles for article (PubMed ID: 30962623)
1. cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data.
Bravo González-Blas C; Minnoye L; Papasokrati D; Aibar S; Hulselmans G; Christiaens V; Davie K; Wouters J; Aerts S
Nat Methods; 2019 May; 16(5):397-400. PubMed ID: 30962623
[TBL] [Abstract][Full Text] [Related]
2. Mapping gene regulatory networks from single-cell omics data.
Fiers MWEJ; Minnoye L; Aibar S; Bravo González-Blas C; Kalender Atak Z; Aerts S
Brief Funct Genomics; 2018 Jul; 17(4):246-254. PubMed ID: 29342231
[TBL] [Abstract][Full Text] [Related]
3. SCENIC: single-cell regulatory network inference and clustering.
Aibar S; González-Blas CB; Moerman T; Huynh-Thu VA; Imrichova H; Hulselmans G; Rambow F; Marine JC; Geurts P; Aerts J; van den Oord J; Atak ZK; Wouters J; Aerts S
Nat Methods; 2017 Nov; 14(11):1083-1086. PubMed ID: 28991892
[TBL] [Abstract][Full Text] [Related]
4. CoRE-ATAC: A deep learning model for the functional classification of regulatory elements from single cell and bulk ATAC-seq data.
Thibodeau A; Khetan S; Eroglu A; Tewhey R; Stitzel ML; Ucar D
PLoS Comput Biol; 2021 Dec; 17(12):e1009670. PubMed ID: 34898596
[TBL] [Abstract][Full Text] [Related]
5. Coupled Single-Cell CRISPR Screening and Epigenomic Profiling Reveals Causal Gene Regulatory Networks.
Rubin AJ; Parker KR; Satpathy AT; Qi Y; Wu B; Ong AJ; Mumbach MR; Ji AL; Kim DS; Cho SW; Zarnegar BJ; Greenleaf WJ; Chang HY; Khavari PA
Cell; 2019 Jan; 176(1-2):361-376.e17. PubMed ID: 30580963
[TBL] [Abstract][Full Text] [Related]
6. Assessment of computational methods for the analysis of single-cell ATAC-seq data.
Chen H; Lareau C; Andreani T; Vinyard ME; Garcia SP; Clement K; Andrade-Navarro MA; Buenrostro JD; Pinello L
Genome Biol; 2019 Nov; 20(1):241. PubMed ID: 31739806
[TBL] [Abstract][Full Text] [Related]
7. Quantitative assessment of cell population diversity in single-cell landscapes.
Liu Q; Herring CA; Sheng Q; Ping J; Simmons AJ; Chen B; Banerjee A; Li W; Gu G; Coffey RJ; Shyr Y; Lau KS
PLoS Biol; 2018 Oct; 16(10):e2006687. PubMed ID: 30346945
[TBL] [Abstract][Full Text] [Related]
8. Unsupervised clustering and epigenetic classification of single cells.
Zamanighomi M; Lin Z; Daley T; Chen X; Duren Z; Schep A; Greenleaf WJ; Wong WH
Nat Commun; 2018 Jun; 9(1):2410. PubMed ID: 29925875
[TBL] [Abstract][Full Text] [Related]
9. EpiScanpy: integrated single-cell epigenomic analysis.
Danese A; Richter ML; Chaichoompu K; Fischer DS; Theis FJ; Colomé-Tatché M
Nat Commun; 2021 Sep; 12(1):5228. PubMed ID: 34471111
[TBL] [Abstract][Full Text] [Related]
10. A Bayesian framework for the inference of gene regulatory networks from time and pseudo-time series data.
Sanchez-Castillo M; Blanco D; Tienda-Luna IM; Carrion MC; Huang Y
Bioinformatics; 2018 Mar; 34(6):964-970. PubMed ID: 29028984
[TBL] [Abstract][Full Text] [Related]
11. A map of cis-regulatory elements and 3D genome structures in zebrafish.
Yang H; Luan Y; Liu T; Lee HJ; Fang L; Wang Y; Wang X; Zhang B; Jin Q; Ang KC; Xing X; Wang J; Xu J; Song F; Sriranga I; Khunsriraksakul C; Salameh T; Li D; Choudhary MNK; Topczewski J; Wang K; Gerhard GS; Hardison RC; Wang T; Cheng KC; Yue F
Nature; 2020 Dec; 588(7837):337-343. PubMed ID: 33239788
[TBL] [Abstract][Full Text] [Related]
12. A deep generative model for multi-view profiling of single-cell RNA-seq and ATAC-seq data.
Li G; Fu S; Wang S; Zhu C; Duan B; Tang C; Chen X; Chuai G; Wang P; Liu Q
Genome Biol; 2022 Jan; 23(1):20. PubMed ID: 35022082
[TBL] [Abstract][Full Text] [Related]
13. Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia.
Granja JM; Klemm S; McGinnis LM; Kathiria AS; Mezger A; Corces MR; Parks B; Gars E; Liedtke M; Zheng GXY; Chang HY; Majeti R; Greenleaf WJ
Nat Biotechnol; 2019 Dec; 37(12):1458-1465. PubMed ID: 31792411
[TBL] [Abstract][Full Text] [Related]
14. Deconvolution of single-cell multi-omics layers reveals regulatory heterogeneity.
Liu L; Liu C; Quintero A; Wu L; Yuan Y; Wang M; Cheng M; Leng L; Xu L; Dong G; Li R; Liu Y; Wei X; Xu J; Chen X; Lu H; Chen D; Wang Q; Zhou Q; Lin X; Li G; Liu S; Wang Q; Wang H; Fink JL; Gao Z; Liu X; Hou Y; Zhu S; Yang H; Ye Y; Lin G; Chen F; Herrmann C; Eils R; Shang Z; Xu X
Nat Commun; 2019 Jan; 10(1):470. PubMed ID: 30692544
[TBL] [Abstract][Full Text] [Related]
15. Evaluating measures of association for single-cell transcriptomics.
Skinnider MA; Squair JW; Foster LJ
Nat Methods; 2019 May; 16(5):381-386. PubMed ID: 30962620
[TBL] [Abstract][Full Text] [Related]
16. Single-Cell Sequencing of Brain Cell Transcriptomes and Epigenomes.
Armand EJ; Li J; Xie F; Luo C; Mukamel EA
Neuron; 2021 Jan; 109(1):11-26. PubMed ID: 33412093
[TBL] [Abstract][Full Text] [Related]
17. Simultaneous Profiling of mRNA Transcriptome and DNA Methylome from a Single Cell.
Hu Y; An Q; Guo Y; Zhong J; Fan S; Rao P; Liu X; Liu Y; Fan G
Methods Mol Biol; 2019; 1979():363-377. PubMed ID: 31028648
[TBL] [Abstract][Full Text] [Related]
18. A compendium and comparative epigenomics analysis of cis-regulatory elements in the pig genome.
Zhao Y; Hou Y; Xu Y; Luan Y; Zhou H; Qi X; Hu M; Wang D; Wang Z; Fu Y; Li J; Zhang S; Chen J; Han J; Li X; Zhao S
Nat Commun; 2021 Apr; 12(1):2217. PubMed ID: 33850120
[TBL] [Abstract][Full Text] [Related]
19. Inference of Gene Regulatory Network from Single-Cell Transcriptomic Data Using pySCENIC.
Kumar N; Mishra B; Athar M; Mukhtar S
Methods Mol Biol; 2021; 2328():171-182. PubMed ID: 34251625
[TBL] [Abstract][Full Text] [Related]
20. Integrative single-cell omics analyses reveal epigenetic heterogeneity in mouse embryonic stem cells.
Luo Y; He J; Xu X; Sun MA; Wu X; Lu X; Xie H
PLoS Comput Biol; 2018 Mar; 14(3):e1006034. PubMed ID: 29561833
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
