Rebecca Hannah


Bioinformatician
Department of Haematology, University of Cambridge, Cambridge Institute for Medical Research

PeriodEmployment and Education
2010 - Now Bioinformatician (CIMR, University of Cambridge, U.K.)
2009 - 2010 Informatician (Astrazeneca, Charnwood)
2009 - 2009 Msc Bioinformatics (University of Leicester, UK)
2004 - 2008 Bsc Biological Sciences [Genetics] [Year in Industry] (University of Leicester, UK)
2006 - 2007 Industrial Placement (Wellcome Trust Sanger Institute, Hinxton, UK)


Research Interest

Keywords: Bioinformatics, ChIP-seq data, gene expression data, systems biology, data integration



Publications

26)    Wilson NK, Schoenfelder S, Hannah R, Sánchez Castillo M, Schütte J, Ladopoulos V, Mitchelmore J, Goode DK, Calero-Nieto FJ, Moignard V, Wilkinson AC, Jimenez-Madrid I, Kinston S, Spivakov M, Fraser P, Göttgens B. ”Integrated genome-scale analysis of the transcriptional regulatory landscape in a blood stem/progenitor cell model”. Blood. 2016 Mar 31;127(13):e12-23.


25 Park HJ, Li J, Hannah R, Biddie S, Leal-Cervantes AI, Kirschner K, Flores Santa Cruz D, Sexl V, Göttgens B, Green AR. ”Cytokine-induced megakaryocytic differentiation is regulated by genome-wide loss of a uSTAT transcriptional program”. EMBO J. 2016 Mar 15;35(6):580-94.


24 Goode DK, Obier N, Vijayabaskar MS, Lie-A-Ling M, Lilly AJ, Hannah R, Lichtinger M, Batta K, Florkowska M, Patel R, Challinor M, Wallace K, Gilmour J, Assi SA, Cauchy P, Hoogenkamp M, Westhead DR, Lacaud G, Kouskoff V, Göttgens B, Bonifer C. ”Dynamic Gene Regulatory Networks Drive Hematopoietic Specification and Differentiation”. Dev Cell. 2016 Mar 7;36(5):572-87.


23 Schütte J, Wang H, Antoniou S, Jarratt A, Wilson NK, Riepsaame J, Calero-Nieto FJ, Moignard V, Basilico S, Kinston SJ, Hannah RL, Chan MC, Nürnberg ST, Ouwehand WH, Bonzanni N, de Bruijn MF, Göttgens B. ”An experimentally validated network of nine haematopoietic transcription factors reveals mechanisms of cell state stability”. Elife. 2016 Feb 22;5:e11469.


22 Sive JI, Basilico S, Hannah R, Kinston SJ, Calero-Nieto FJ, Göttgens B. ”Genome-scale definition of the transcriptional programme associated with compromised PU.1 activity in acute myeloid leukaemia”. Leukemia. 2016 Jan;30(1):14-23.


21 Lau WW, Hannah R, Green AR, Göttgens B. ”The JAK-STAT signaling pathway is differentially activated in CALR-positive compared with JAK2V617F-positive ET patients”. Blood. 2015 Mar 5;125(10):1679-81.


20 Sánchez-Castillo M, Ruau D, Wilkinson AC, Ng FS, Hannah R, Diamanti E, Lombard P, Wilson NK, Gottgens B. ”CODEX: a next-generation sequencing experiment database for the haematopoietic and embryonic stem cell communities”. Nucleic Acids Res. 2015 Jan;43(Database issue):D1117-23.


19 Ng FS, Schütte J, Ruau D, Diamanti E, Hannah R, Kinston SJ, Göttgens B. ”Constrained transcription factor spacing is prevalent and important for transcriptional control of mouse blood cells”. Nucleic Acids Res. 2014 Dec 16;42(22):13513-24.


18 Wilkinson AC, Kawata VK, Schütte J, Gao X, Antoniou S, Baumann C, Woodhouse S, Hannah R, Tanaka Y, Swiers G, Moignard V, Fisher J, Hidetoshi S, Tijssen MR, de Bruijn MF, Liu P, Göttgens B. ”Single-cell analyses of regulatory network perturbations using enhancer-targeting TALEs suggest novel roles for PU.1 during haematopoietic specification”. Development. 2014 Oct;141(20):4018-30.


17 Calero-Nieto FJ, Ng FS, Wilson NK, Hannah R, Moignard V, Leal-Cervantes AI, Jimenez-Madrid I, Diamanti E, Wernisch L, Göttgens B. ”Key regulators control distinct transcriptional programmes in blood progenitor and mast cells”. EMBO J. 2014 Jun 2;33(11):1212-26.


16 Sun D, Luo M, Jeong M, Rodriguez B, Xia Z, Hannah R, Wang H, Le T, Faull KF, Chen R, Gu H, Bock C, Meissner A, Göttgens B, Darlington GJ, Li W, Goodell MA. ”Epigenomic profiling of young and aged HSCs reveals concerted changes during aging that reinforce self-renewal”. Cell Stem Cell. 2014 May 1;14(5):673-88.


15 Jeong M, Sun D, Luo M, Huang Y, Challen GA, Rodriguez B, Zhang X, Chavez L, Wang H, Hannah R, Kim SB, Yang L, Ko M, Chen R, Göttgens B, Lee JS, Gunaratne P, Godley LA, Darlington GJ, Rao A, Li W, Goodell MA. ”Large conserved domains of low DNA methylation maintained by Dnmt3a”. Nat Genet. 2014 Jan;46(1):17-23.


14 Ruau D, Ng FS, Wilson NK, Hannah R, Diamanti E, Lombard P, Woodhouse S, Göttgens B. ”Building an ENCODE-style data compendium on a shoestring”. Nat Methods. 2013 Oct;10(10):926.


13 Goldberg L, Tijssen MR, Birger Y, Hannah RL, Kinston SJ, Schütte J, Beck D, Knezevic K, Schiby G, Jacob-Hirsch J, Biran A, Kloog Y, Marcucci G, Bloomfield CD, Aplan PD, Pimanda JE, Göttgens B, Izraeli S. ”Genome-scale expression and transcription factor binding profiles reveal therapeutic targets in transgenic ERG myeloid leukemia”. Blood. 2013 Oct 10;122(15):2694-703.


12 Moignard V, Macaulay IC, Swiers G, Buettner F, Schütte J, Calero-Nieto FJ, Kinston S, Joshi A, Hannah R, Theis FJ, Jacobsen SE, de Bruijn MF, Göttgens B. ”Characterization of transcriptional networks in blood stem and progenitor cells using high-throughput single-cell gene expression analysis”. Nat Cell Biol. 2013 Apr;15(4):363-72.


11 Joshi A, Hannah R, Diamanti E, Göttgens B. ”Gene set control analysis predicts hematopoietic control mechanisms from genome-wide transcription factor binding data”. Exp Hematol. 2013 Apr;41(4):354-66.e14.


10 Lichtinger M, Ingram R, Hannah R, Müller D, Clarke D, Assi SA, Lie-A-Ling M, Noailles L, Vijayabaskar MS, Wu M, Tenen DG, Westhead DR, Kouskoff V, Lacaud G, Göttgens B, Bonifer C. ”RUNX1 reshapes the epigenetic landscape at the onset of haematopoiesis”. EMBO J. 2012 Nov 14;31(22):4318-33.


9 Khandanpour C, Krongold J, Schütte J, Bouwman F, Vassen L, Gaudreau MC, Chen R, Calero-Nieto FJ, Diamanti E, Hannah R, Meyer SE, Grimes HL, van der Reijden BA, Jansen JH, Patel CV, Peeters JK, Löwenberg B, Dührsen U, Göttgens B, Möröy T. ”The human GFI136N variant induces epigenetic changes at the Hoxa9 locus and accelerates K-RAS driven myeloproliferative disorder in mice”. Blood. 2012 Nov 8;120(19):4006-17.


8 Martello G, Sugimoto T, Diamanti E, Joshi A, Hannah R, Ohtsuka S, Göttgens B, Niwa H, Smith A. ”Esrrb is a pivotal target of the Gsk3/Tcf3 axis regulating embryonic stem cell self-renewal”. Cell Stem Cell. 2012 Oct 5;11(4):491-504.


7 Dawson MA, Foster SD, Bannister AJ, Robson SC, Hannah R, Wang X, Xhemalce B, Wood AD, Green AR, Göttgens B, Kouzarides T. ”Three distinct patterns of histone H3Y41 phosphorylation mark active genes”. Cell Rep. 2012 Sep 27;2(3):470-7.


6 Dryden NH, Sperone A, Martin-Almedina S, Hannah RL, Birdsey GM, Khan ST, Layhadi JA, Mason JC, Haskard DO, Göttgens B, Randi AM. ”The transcription factor Erg controls endothelial cell quiescence by repressing activity of nuclear factor NF-kB p65”. J Biol Chem. 2012 Apr 6;287(15):12331-42.


5 Smith AM, Calero-Nieto FJ, Schütte J, Kinston S, Timms RT, Wilson NK, Hannah RL, Landry JR, Göttgens B. ”Integration of Elf-4 into stem/progenitor and erythroid regulatory networks through locus-wide chromatin studies coupled with in vivo functional validation”. Mol Cell Biol. 2012 Feb;32(4):763-73.


4 Birdsey GM, Dryden NH, Shah AV, Hannah R, Hall MD, Haskard DO, Parsons M, Mason JC, Zvelebil M, Gottgens B, Ridley AJ, Randi AM. ”The transcription factor Erg regulates expression of histone deacetylase 6 and multiple pathways involved in endothelial cell migration and angiogenesis”. Blood. 2012 Jan 19;119(3):894-903.


3 Chan WI, Hannah RL, Dawson MA, Pridans C, Foster D, Joshi A, Göttgens B, Van Deursen JM, Huntly BJ. ”The transcriptional coactivator Cbp regulates self-renewal and differentiation in adult hematopoietic stem cells”. Mol Cell Biol. 2011 Dec;31(24):5046-60.


2 Tijssen MR, Cvejic A, Joshi A, Hannah RL, Ferreira R, Forrai A, Bellissimo DC, Oram SH, Smethurst PA, Wilson NK, Wang X, Ottersbach K, Stemple DL, Green AR, Ouwehand WH, Göttgens B. ”Genome-wide analysis of simultaneous GATA1/2, RUNX1, FLI1, and SCL binding in megakaryocytes identifies hematopoietic regulators”. Dev Cell. 2011 May 17;20(5):597-609.


1 Hannah R., Joshi A., Wilson N.K., Kinston S., Gottgens B. (2011) A ”Compendium of Genome-wide Haematopoietic Transcription Factor Maps supports the Identification of Gene Regulatory Control Mechanisms”. Exp Hematol. 2011 May;39(5):531-41.

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