Nicholas K ONeill
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Explore the profile of Nicholas K ONeill including associated specialties, affiliations and a list of published articles.
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10
Citations
407
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Recent Articles
1.
ONeill N, Stein T, Hu J, Rehman H, Campbell J, Yajima M, et al.
BMC Bioinformatics
. 2023 Sep;
24(1):349.
PMID: 37726653
Background: Quantifying cell-type abundance in bulk tissue RNA-sequencing enables researchers to better understand complex systems. Newer deconvolution methodologies, such as MuSiC, use cell-type signatures derived from single-cell RNA-sequencing (scRNA-seq) data...
2.
Rickner H, Jiang L, Hong R, ONeill N, Mojica C, Snyder B, et al.
Nat Commun
. 2022 Oct;
13(1):6275.
PMID: 36271092
The use of iPSC derived brain organoid models to study neurodegenerative disease has been hampered by a lack of systems that accurately and expeditiously recapitulate pathogenesis in the context of...
3.
Olayinka O, ONeill N, Farrer L, Wang G, Zhang X
Curr Protoc
. 2022 May;
2(5):e426.
PMID: 35587224
Mapping quantitative trait loci (QTLs) for molecular traits from chromatin to metabolites (i.e., xQTLs) provides insight into the locations and effect modes of genetic variants that influence these molecular phenotypes...
4.
Jadhav U, Cavazza A, Banerjee K, Xie H, ONeill N, Saenz-Vash V, et al.
Mol Cell
. 2019 Mar;
74(3):542-554.e5.
PMID: 30905509
Developing and adult tissues use different cis-regulatory elements. Although DNA at some decommissioned embryonic enhancers is hypomethylated in adult cells, it is unknown whether this putative epigenetic memory is complete...
5.
Banerjee K, Saxena M, Kumar N, Chen L, Cavazza A, Toke N, et al.
Genes Dev
. 2018 Oct;
32(21-22):1430-1442.
PMID: 30366903
After acquiring competence for selected cell fates, embryonic primordia may remain plastic for variable periods before tissue identity is irrevocably determined (commitment). We investigated the chromatin basis for these developmental...
6.
Malhotra N, Leyva-Castillo J, Jadhav U, Barreiro O, Kam C, ONeill N, et al.
Sci Immunol
. 2018 Mar;
3(21).
PMID: 29500225
Atopic dermatitis is an allergic inflammatory skin disease characterized by the production of the type 2 cytokines in the skin by type 2 innate lymphoid cells (ILC2s) and T helper...
7.
Saxena M, San Roman A, ONeill N, Sulahian R, Jadhav U, Shivdasani R
Genes Dev
. 2018 Jan;
31(23-24):2391-2404.
PMID: 29321178
Compacted chromatin and nucleosomes are known barriers to gene expression; the nature and relative importance of other transcriptional constraints remain unclear, especially at distant enhancers. Polycomb repressor complex 2 (PRC2)...
8.
Jadhav U, Saxena M, ONeill N, Saadatpour A, Yuan G, Herbert Z, et al.
Cell Stem Cell
. 2017 Jun;
21(1):65-77.e5.
PMID: 28648363
Replicating Lgr5 stem cells and quiescent Bmi1 cells behave as intestinal stem cells (ISCs) in vivo. Disrupting Lgr5 ISCs triggers epithelial renewal from Bmi1 cells, from secretory or absorptive progenitors,...
9.
Jadhav U, Nalapareddy K, Saxena M, ONeill N, Pinello L, Yuan G, et al.
Cell
. 2016 May;
165(6):1389-1400.
PMID: 27212235
Bivalent promoters in embryonic stem cells (ESCs) carry methylation marks on two lysine residues, K4 and K27, in histone3 (H3). K4me2/3 is generally considered to promote transcription, and Polycomb Repressive...
10.
Cejas P, Li L, ONeill N, Duarte M, Rao P, Bowden M, et al.
Nat Med
. 2016 Apr;
22(6):685-91.
PMID: 27111282
Extensive cross-linking introduced during routine tissue fixation of clinical pathology specimens severely hampers chromatin immunoprecipitation followed by next-generation sequencing (ChIP-seq) analysis from archived tissue samples. This limits the ability to...