Liu B - Search Results

1

IRIS3: integrated cell-type-specific regulon inference server from single-cell RNA-Seq.

Ma A, Wang C, Chang Y, Brennan FH, McDermaid A, Liu B, Zhang C, Popovich PG, Ma Q. Ma A, et al. Among authors: liu b. Nucleic Acids Res. 2020 Jul 2;48(W1):W275-W286. doi: 10.1093/nar/gkaa394. Nucleic Acids Res. 2020. PMID: 32421805 Free PMC article.

2

A new framework for identifying cis-regulatory motifs in prokaryotes.

Li G, Liu B, Ma Q, Xu Y. Li G, et al. Among authors: liu b. Nucleic Acids Res. 2011 Apr;39(7):e42. doi: 10.1093/nar/gkq948. Epub 2010 Dec 11. Nucleic Acids Res. 2011. PMID: 21149261 Free PMC article.

3

An integrated toolkit for accurate prediction and analysis of cis-regulatory motifs at a genome scale.

Ma Q, Liu B, Zhou C, Yin Y, Li G, Xu Y. Ma Q, et al. Among authors: liu b. Bioinformatics. 2013 Sep 15;29(18):2261-8. doi: 10.1093/bioinformatics/btt397. Epub 2013 Jul 10. Bioinformatics. 2013. PMID: 23846744

4

DMINDA: an integrated web server for DNA motif identification and analyses.

Ma Q, Zhang H, Mao X, Zhou C, Liu B, Chen X, Xu Y. Ma Q, et al. Among authors: liu b. Nucleic Acids Res. 2014 Jul;42(Web Server issue):W12-9. doi: 10.1093/nar/gku315. Epub 2014 Apr 21. Nucleic Acids Res. 2014. PMID: 24753419 Free PMC article.

5

Revisiting operons: an analysis of the landscape of transcriptional units in E. coli.

Mao X, Ma Q, Liu B, Chen X, Zhang H, Xu Y. Mao X, et al. Among authors: liu b. BMC Bioinformatics. 2015 Nov 4;16:356. doi: 10.1186/s12859-015-0805-8. BMC Bioinformatics. 2015. PMID: 26538447 Free PMC article.

6

Bacterial regulon modeling and prediction based on systematic cis regulatory motif analyses.

Liu B, Zhou C, Li G, Zhang H, Zeng E, Liu Q, Ma Q. Liu B, et al. Among authors: liu q. Sci Rep. 2016 Mar 15;6:23030. doi: 10.1038/srep23030. Sci Rep. 2016. PMID: 26975728 Free PMC article.

7

An integrative and applicable phylogenetic footprinting framework for cis-regulatory motifs identification in prokaryotic genomes.

Liu B, Zhang H, Zhou C, Li G, Fennell A, Wang G, Kang Y, Liu Q, Ma Q. Liu B, et al. Among authors: liu q. BMC Genomics. 2016 Aug 9;17:578. doi: 10.1186/s12864-016-2982-x. BMC Genomics. 2016. PMID: 27507169 Free PMC article.

8

An algorithmic perspective of de novo cis-regulatory motif finding based on ChIP-seq data.

Liu B, Yang J, Li Y, McDermaid A, Ma Q. Liu B, et al. Brief Bioinform. 2018 Sep 28;19(5):1069-1081. doi: 10.1093/bib/bbx026. Brief Bioinform. 2018. PMID: 28334268 Review.

9

Computational Prediction of Sigma-54 Promoters in Bacterial Genomes by Integrating Motif Finding and Machine Learning Strategies.

Liu B, Han L, Liu X, Wu J, Ma Q. Liu B, et al. Among authors: liu x. IEEE/ACM Trans Comput Biol Bioinform. 2019 Jul-Aug;16(4):1211-1218. doi: 10.1109/TCBB.2018.2816032. Epub 2018 Mar 15. IEEE/ACM Trans Comput Biol Bioinform. 2019. PMID: 29993815

10

Interpretation of differential gene expression results of RNA-seq data: review and integration.

McDermaid A, Monier B, Zhao J, Liu B, Ma Q. McDermaid A, et al. Among authors: liu b. Brief Bioinform. 2019 Nov 27;20(6):2044-2054. doi: 10.1093/bib/bby067. Brief Bioinform. 2019. PMID: 30099484 Free PMC article. Review.

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