60 related articles for article (PubMed ID: 38643066)
1. CEMIG: prediction of the cis-regulatory motif using the de Bruijn graph from ATAC-seq.
Wang Y; Li Y; Wang C; Lio CJ; Ma Q; Liu B
Brief Bioinform; 2023 Nov; 25(1):. PubMed ID: 38189539
[TBL] [Abstract][Full Text] [Related]
2. Cactus: A user-friendly and reproducible ATAC-Seq and mRNA-Seq analysis pipeline for data preprocessing, differential analysis, and enrichment analysis.
Salignon J; Millan-Ariño L; Garcia MU; Riedel CG
Genomics; 2024 Jul; 116(4):110858. PubMed ID: 38735595
[TBL] [Abstract][Full Text] [Related]
3. Scalable and unbiased sequence-informed embedding of single-cell ATAC-seq data with CellSpace.
Tayyebi Z; Pine AR; Leslie CS
Nat Methods; 2024 Jun; 21(6):1014-1022. PubMed ID: 38724693
[TBL] [Abstract][Full Text] [Related]
4. Incorporating network diffusion and peak location information for better single-cell ATAC-seq data analysis.
Yu J; Leng J; Hou Z; Sun D; Wu LY
Brief Bioinform; 2024 Jan; 25(2):. PubMed ID: 38493346
[TBL] [Abstract][Full Text] [Related]
5. Predmoter-cross-species prediction of plant promoter and enhancer regions.
Kindel F; Triesch S; Schlüter U; Randarevitch LA; Reichel-Deland V; Weber APM; Denton AK
Bioinform Adv; 2024; 4(1):vbae074. PubMed ID: 38841126
[TBL] [Abstract][Full Text] [Related]
6. Discovering DNA shape motifs with multiple DNA shape features: generalization, methods, and validation.
Chen N; Yu J; Liu Z; Meng L; Li X; Wong KC
Nucleic Acids Res; 2024 May; 52(8):4137-4150. PubMed ID: 38572749
[TBL] [Abstract][Full Text] [Related]
7. Transcription Factor Binding Site Prediction Using CnNet Approach.
Masood MD; Manjula ; Sugumaran V
IEEE/ACM Trans Comput Biol Bioinform; 2024 Jun; PP():. PubMed ID: 38848239
[TBL] [Abstract][Full Text] [Related]
8. DeepKla: An attention mechanism-based deep neural network for protein lysine lactylation site prediction.
Lv H; Dao FY; Lin H
Imeta; 2022 Mar; 1(1):e11. PubMed ID: 38867734
[TBL] [Abstract][Full Text] [Related]
9. cisDynet: An integrated platform for modeling gene-regulatory dynamics and networks.
Zhu T; Zhou X; You Y; Wang L; He Z; Chen D
Imeta; 2023 Nov; 2(4):e152. PubMed ID: 38868212
[TBL] [Abstract][Full Text] [Related]
10. DDMut-PPI: predicting effects of mutations on protein-protein interactions using graph-based deep learning.
Zhou Y; Myung Y; Rodrigues CHM; Ascher DB
Nucleic Acids Res; 2024 May; ():. PubMed ID: 38783112
[TBL] [Abstract][Full Text] [Related]
11. DeepOCR: A multi-species deep-learning framework for accurate identification of open chromatin regions in livestock.
Zhao L; Hao R; Chai Z; Fu W; Yang W; Li C; Liu Q; Jiang Y
Comput Biol Chem; 2024 Jun; 110():108077. PubMed ID: 38691895
[TBL] [Abstract][Full Text] [Related]
12. A deep learning method to predict bacterial ADP-ribosyltransferase toxins.
Zheng D; Zhou S; Chen L; Pang G; Yang J
Bioinformatics; 2024 Jun; ():. PubMed ID: 38885365
[TBL] [Abstract][Full Text] [Related]
13. D-CyPre: a machine learning-based tool for accurate prediction of human CYP450 enzyme metabolic sites.
Yang H; Liu J; Chen K; Cong S; Cai S; Li Y; Jia Z; Wu H; Lou T; Wei Z; Yang X; Xiao H
PeerJ Comput Sci; 2024; 10():e2040. PubMed ID: 38855237
[TBL] [Abstract][Full Text] [Related]
14. MMGAT: a graph attention network framework for ATAC-seq motifs finding.
Wu X; Hou W; Zhao Z; Huang L; Sheng N; Yang Q; Zhang S; Wang Y
BMC Bioinformatics; 2024 Apr; 25(1):158. PubMed ID: 38643066
[TBL] [Abstract][Full Text] [Related]
15. GNNMF: a multi-view graph neural network for ATAC-seq motif finding.
Zhang S; Wu X; Lian Z; Zuo C; Wang Y
BMC Genomics; 2024 Mar; 25(1):300. PubMed ID: 38515040
[TBL] [Abstract][Full Text] [Related]
16. MMGraph: a multiple motif predictor based on graph neural network and coexisting probability for ATAC-seq data.
Zhang S; Yang L; Wu X; Sheng N; Fu Y; Ma A; Wang Y
Bioinformatics; 2022 Sep; 38(19):4636-4638. PubMed ID: 35997564
[TBL] [Abstract][Full Text] [Related]
17. TAMC: A deep-learning approach to predict motif-centric transcriptional factor binding activity based on ATAC-seq profile.
Yang T; Henao R
PLoS Comput Biol; 2022 Sep; 18(9):e1009921. PubMed ID: 36094959
[TBL] [Abstract][Full Text] [Related]
18. From reads to insight: a hitchhiker's guide to ATAC-seq data analysis.
Yan F; Powell DR; Curtis DJ; Wong NC
Genome Biol; 2020 Feb; 21(1):22. PubMed ID: 32014034
[TBL] [Abstract][Full Text] [Related]
19. Detect accessible chromatin using ATAC-sequencing, from principle to applications.
Sun Y; Miao N; Sun T
Hereditas; 2019; 156():29. PubMed ID: 31427911
[TBL] [Abstract][Full Text] [Related]
20.
; ; . PubMed ID:
[No Abstract] [Full Text] [Related]
[Next] [New Search]