Selected Publications:

Dhaliwal NK, Miri K, Davidson S, El Jarkass HT, Mitchell JA KLF4 Nuclear Export Requires ERK Activation and Initiates Exit from Naive Pluripotency Stem Cell Reports 2018;10

Moorthy SD, Davidson S, Shchuka VM, Singh G, Malek-Gilani N, Langroudi L, Martchenko A, So V, Macpherson NN and Mitchell JA. Enhancers and super-enhancers have an equivalent regulatory role in embryonic stem cells through regulation of single or multiple genes. Genome Res. 2017;27: 246-258.

Moorthy SD, Mitchell JA. Generating CRISPR/Cas9 Mediated Monoallelic Deletions to Study Enhancer Function in Mouse Embryonic Stem Cells J Vis Exp 2016, (110), e53552 pdf

Dhaliwal NK, Mitchell JA. Nuclear RNA Isolation and Sequencing. Methods Mol Biol. 2016;1402:63-71.

Gillespie ZE, MacKay K, Sander M, Trost B, Dawicki W, Wickramarathna A, Gordon J, Eramian M, Kill IR, Bridger JM, Kusalik A, Mitchell JA, Eskiw CH. Rapamycin reduces fibroblast proliferation without causing quiescence and induces STAT5A/B-mediated cytokine production. Nucleus 2015, 6(6):490-506.

Trost B, Moir CA, Gillespie ZE, Kusalik A, Mitchell JA, Eskiw CH. Concordance between RNA-sequencing data and DNA microarray data in transcriptome analysis of proliferative and quiescent fibroblasts. R Soc Open Sci. 2015 Sep 30;2(9):150402

VM Shchuka, N Malek-Gilani, G Singh, L Langroudi, NK Dhaliwal, SD Moorthy, S Davidson, NN Macpherson and JA Mitchell. Chromatin Dynamics in Lineage Commitment and Cellular Reprogramming. Genes 2015, 6(3), 641-661.

S Schoenfelder, M Furlan-Magaril, B Mifsud, F Tavares-Cadete, R Sugar, BM Javierre, T Nagano, Y Katsman, M Sakthidevi, SW Wingett, E Dimitrova, A Dimond, LB Edelman, S Elderkin, K Tabbada, E Darbo, S Andrews, Herman B, A Higgs, E LeProust, CS Osborne, JA Mitchell, NM Luscombe and P Fraser. The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements. Genome Res. April 2015 25: 582-597.

HY Zhou, Y Katsman, NK Dhaliwal, S Davidson, NN Macpherson, M Sakthidevi, F Collura,and JA Mitchell A Sox2 distal enhancer cluster regulates embryonic stem cell differentiation potential. Genes Dev, 2014, 28 (24): 2699-2711.

S Davidson, NN Macpherson, and JA Mitchell. Nuclear organisation of RNA polymerase II transcription. Biochem. Cell Biol. 91: 1-9 (2013)

A Bhattacharya, CY Chen, S Ho and JA Mitchell. Upstream distal regulatory elements contact the Lmo2 promoter in mouse erythroid cells. PLoS ONE, 2012, 7(12): e52880

T Sexton, S Kurukuti, JA Mitchell, D Umlauf, T Nagano and P Fraser. Sensitive detection of chromatin co-associations using enhanced chromosome conformation capture on chip. Nature Protocols, 2012, 7:1335-1350.

JA Mitchell, I Clay, D Umlauf, CY Chen, CA Moir, CH Eskiw, S Schoenfelder, L Chakalova, T Nanano, and P Fraser. Nuclear RNA sequencing of the mouse erythroid cell transcriptome. PLoS ONE, 2012, 7(12): e49274

CY Chen, Q Morris and JA Mitchell. Enhancer identification in mouse embryonic stem cells using integrative modelling of chromatin and genomic features. BMC Genomics, 2012, 13:152.

S Schoenfelder, T Sexton, L Chakalova, NF Cope, A Horton, S Andrews, S Kurukuti, JA Mitchell, D Umlauf, DS Dimitrova, CH Eskiw, Y Luo, CL Wei, Y Ruan, JJ Bieker and P Fraser. Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells. Nature Genetics, 2010 Jan;42(1):53-61.

T Nagano, JA Mitchell, LA Sanz, FM Pauler, AC Ferguson-Smith, R Feil and P Fraser. The Air non-coding RNA epigenetically silences transcription by targeting G9a to chromatin. Science. 2008, 322(5908): 1717-20.

JA Mitchell and P Fraser. Transcription factories are nuclear sub-compartments that remain in the absence of transcription. Genes Dev. 2008, 22(1): 20-5.

J Miles, JA Mitchell, L Chakalova, B Goyenechea, CS Osborne, L O'Neill, K Tanimoto, JD Engel, P Fraser. Intergenic Transcription, Cell-Cycle and the Developmentally Regulated Epigenetic Profile of the Human Beta-Globin Locus. PLoS ONE, 2007, 2(7): e630.

CS Osborne, L Chakalova, JA Mitchell, A Horton, AL Wood, DJ Bolland, AE Corcoran and P Fraser.  Myc Dynamically and Preferentially Relocates to a Transcription Factory Occupied by Igh. PLoS Biol. 2007 5(8):e192.

L Chakalova, E Debrand, JA Mitchell, CS Osborne, and P Fraser, Replication and Transcription: Shaping the Landscape of the Genome. Nat Rev Genet, 2005, 6(9): 669-77.

JA Mitchell and SJ Lye, Differential Activation of the Connexin 43 Promoter by Dimers of Activator Protein-1 Transcription Factors in Myometrial Cells. Endocrinology, 2005, 146(4): 2048-54.

CS Osborne, L Chakalova, KE Brown, D Carter, A Horton, E Debrand, B Goyenechea, JA Mitchell, S Lopes, W Reik and P Fraser, Active genes dynamically co-localise to shared sites of ongoing transcription. Nat Genet, 2004, 36 (10): 1065-1071.

JA Mitchell, O Shynlova B Lowell Langille and SJ Lye, Mechanical Stretch and Progesterone Differentially Regulate Activator Protein-1 Transcription Factors in Primary Rat Myometrial Smooth Muscle Cells. Am J of Physiol: Endocrinol Metab, 2004, 287: E439-E445.

JA Mitchell, and SJ Lye, Differential Expression of Activator Protein-1 Transcription Factors in Pregnant Rat Myometrium. Biol Reprod, 2002, 67 (1): 240-246.