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Shalima S Nair

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Articles 19
Citations 871
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Recent Articles
1.
Achinger-Kawecka J, Stirzaker C, Portman N, Campbell E, Chia K, Du Q, et al.
Nat Struct Mol Biol . 2024 Jan; 31(3):498-512. PMID: 38182927
Three-dimensional (3D) epigenome remodeling is an important mechanism of gene deregulation in cancer. However, its potential as a target to counteract therapy resistance remains largely unaddressed. Here, we show that...
2.
Du Q, Smith G, Luu P, Ferguson J, Armstrong N, Caldon C, et al.
Cell Rep . 2021 Sep; 36(12):109722. PMID: 34551299
DNA replication timing and three-dimensional (3D) genome organization are associated with distinct epigenome patterns across large domains. However, whether alterations in the epigenome, in particular cancer-related DNA hypomethylation, affects higher-order...
3.
Schmitz U, Shah J, Dhungel B, Monteuuis G, Luu P, Petrova V, et al.
Cancers (Basel) . 2020 Dec; 12(12). PMID: 33322625
Vast transcriptomics and epigenomics changes are characteristic of human cancers, including leukaemia. At remission, we assume that these changes normalise so that omics-profiles resemble those of healthy individuals. However, an...
4.
Green I, Pinello N, Song R, Lee Q, Halstead J, Kwok C, et al.
Nucleic Acids Res . 2020 May; 48(12):6513-6529. PMID: 32449925
Monocytes and macrophages are essential components of the innate immune system. Herein, we report that intron retention (IR) plays an important role in the development and function of these cells....
5.
Bradford S, Nair S, Statham A, van Dijk S, Peters T, Anwar F, et al.
Sci Rep . 2019 Jul; 9(1):9511. PMID: 31266983
Adipocytes support key metabolic and endocrine functions of adipose tissue. Lipid is stored in two major classes of depots, namely visceral adipose (VA) and subcutaneous adipose (SA) depots. Increased visceral...
6.
Skvortsova K, Masle-Farquhar E, Luu P, Song J, Qu W, Zotenko E, et al.
Cancer Cell . 2019 Feb; 35(2):297-314.e8. PMID: 30753827
Promoter CpG islands are typically unmethylated in normal cells, but in cancer a proportion are subject to hypermethylation. Using methylome sequencing we identified CpG islands that display partial methylation encroachment...
7.
Du Q, Bert S, Armstrong N, Caldon C, Song J, Nair S, et al.
Nat Commun . 2019 Jan; 10(1):416. PMID: 30679435
DNA replication timing is known to facilitate the establishment of the epigenome, however, the intimate connection between replication timing and changes to the genome and epigenome in cancer remain largely...
8.
Nair S, Luu P, Qu W, Maddugoda M, Huschtscha L, Reddel R, et al.
Epigenetics Chromatin . 2018 May; 11(1):24. PMID: 29807544
Background: Comprehensive genome-wide DNA methylation profiling is critical to gain insights into epigenetic reprogramming during development and disease processes. Among the different genome-wide DNA methylation technologies, whole genome bisulphite sequencing...
9.
Pidsley R, Lawrence M, Zotenko E, Niranjan B, Statham A, Song J, et al.
Genome Res . 2018 Apr; 28(5):625-638. PMID: 29650553
The growth and progression of solid tumors involves dynamic cross-talk between cancer epithelium and the surrounding microenvironment. To date, molecular profiling has largely been restricted to the epithelial component of...
10.
Knaupp A, Buckberry S, Pflueger J, Lim S, Ford E, Larcombe M, et al.
Cell Stem Cell . 2017 Dec; 21(6):834-845.e6. PMID: 29220667
Somatic cell reprogramming into induced pluripotent stem cells (iPSCs) induces changes in genome architecture reflective of the embryonic stem cell (ESC) state. However, only a small minority of cells typically...