Boyle AP - Search Results

1

Diehl AG, Boyle AP. Diehl AG, et al. Among authors: boyle ap. Trends Genet. 2016 Apr;32(4):238-249. doi: 10.1016/j.tig.2016.02.002. Epub 2016 Mar 5. Trends Genet. 2016. PMID: 26962025 Review.

2

Mining the Unknown: Assigning Function to Noncoding Single Nucleotide Polymorphisms.

Nishizaki SS, Boyle AP. Nishizaki SS, et al. Among authors: boyle ap. Trends Genet. 2017 Jan;33(1):34-45. doi: 10.1016/j.tig.2016.10.008. Epub 2016 Dec 6. Trends Genet. 2017. PMID: 27939749 Free PMC article. Review.

3

Conserved and species-specific transcription factor co-binding patterns drive divergent gene regulation in human and mouse.

Diehl AG, Boyle AP. Diehl AG, et al. Among authors: boyle ap. Nucleic Acids Res. 2018 Feb 28;46(4):1878-1894. doi: 10.1093/nar/gky018. Nucleic Acids Res. 2018. PMID: 29361190 Free PMC article.

4

The ENCODE Blacklist: Identification of Problematic Regions of the Genome.

Amemiya HM, Kundaje A, Boyle AP. Amemiya HM, et al. Among authors: boyle ap. Sci Rep. 2019 Jun 27;9(1):9354. doi: 10.1038/s41598-019-45839-z. Sci Rep. 2019. PMID: 31249361 Free PMC article.

5

Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes.

Diehl AG, Ouyang N, Boyle AP. Diehl AG, et al. Among authors: boyle ap. Nat Commun. 2020 Apr 14;11(1):1796. doi: 10.1038/s41467-020-15520-5. Nat Commun. 2020. PMID: 32286261 Free PMC article.

6

CGIMP: Real-time exploration and covariate projection for self-organizing map datasets.

Diehl AG, Boyle AP. Diehl AG, et al. Among authors: boyle ap. J Open Source Softw. 2019;4(39):1520. doi: 10.21105/joss.01520. Epub 2019 Jul 10. J Open Source Softw. 2019. PMID: 32500114 Free PMC article. No abstract available.

7

MapGL: inferring evolutionary gain and loss of short genomic sequence features by phylogenetic maximum parsimony.

Diehl AG, Boyle AP. Diehl AG, et al. Among authors: boyle ap. BMC Bioinformatics. 2020 Sep 22;21(1):416. doi: 10.1186/s12859-020-03742-9. BMC Bioinformatics. 2020. PMID: 32962625 Free PMC article.

8

LRphase: an efficient method for assigning haplotype identity to long reads.

Holmes MJ, Mahjour B, Castro CP, Farnum GA, Diehl AG, Boyle AP. Holmes MJ, et al. Among authors: boyle ap. bioRxiv [Preprint]. 2023 Jan 20:2023.01.18.524565. doi: 10.1101/2023.01.18.524565. bioRxiv. 2023. PMID: 36712073 Free PMC article. Preprint.

9

Multiplexed long-read plasmid validation and analysis using OnRamp.

Mumm C, Drexel ML, McDonald TL, Diehl AG, Switzenberg JA, Boyle AP. Mumm C, et al. Among authors: boyle ap. Genome Res. 2023 May;33(5):741-749. doi: 10.1101/gr.277369.122. Epub 2023 May 8. Genome Res. 2023. PMID: 37156622 Free PMC article.

10

Annotating and prioritizing human non-coding variants with RegulomeDB v.2.

Dong S, Zhao N, Spragins E, Kagda MS, Li M, Assis P, Jolanki O, Luo Y, Cherry JM, Boyle AP, Hitz BC. Dong S, et al. Among authors: boyle ap. Nat Genet. 2023 May;55(5):724-726. doi: 10.1038/s41588-023-01365-3. Nat Genet. 2023. PMID: 37173523 Free PMC article. No abstract available.

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