Simon Tomlinson

Position:

Senior Lecturer in Bioinformatics

Telephone:

0131 651 9500

Display email:

simon.tomlinson@ed.ac.uk

Publications

2018

Mapping transcription factor occupancy using minimal numbers of cells in vitro and in vivo. Tosti, Luca, Ashmore James, Tan Boon Siang Nich, Carbone Benedetta, Mistri Tapan K., Wilson Valerie, Tomlinson Simon R., and Kaji Keisuke , Genome Res, 2018 Apr, Volume 28, Issue 4, p.592-605, (2018)

An efficient and scalable pipeline for epitope tagging in mammalian stem cells using Cas9 ribonucleoprotein. Dewari, Pooran Singh, Southgate Benjamin, Mccarten Katrina, Monogarov German, O'Duibhir Eoghan, Quinn Niall, Tyrer Ashley, Leitner Marie-Christin, Plumb Colin, Kalantzaki Maria, et al. , Elife, 2018 Apr 11, Volume 7, (2018)

2017

A molecular roadmap of the AGM region reveals BMPER as a novel regulator of HSC maturation. McGarvey, Alison C., Rybtsov Stanislav, Souilhol Céline, Tamagno Sara, Rice Ritva, Hills David, Godwin Duncan, Rice David, Tomlinson Simon R., and Medvinsky A L. , J Exp Med, 2017 Dec 04, Volume 214, Issue 12, p.3731-3751, (2017)

2015

Novel Human Embryonic Stem Cell Regulators Identified by Conserved and Distinct CpG Island Methylation State. Pells, Steve, Koutsouraki Eirini, Morfopoulou Sofia, Valencia-Cadavid Sara, Tomlinson Simon R., Kalathur Ravi, Futschik Matthias E., and De Sousa Paul A. , PLoS One, 2015, Volume 10, Issue 7, p.e0131102, (2015)

Selective influence of Sox2 on POU transcription factor binding in embryonic and neural stem cells. Mistri, Tapan Kumar, Devasia Arun George, Chu Lee Thean, Ng Wei Ping, Halbritter Florian, Colby Douglas, Martynoga Ben, Tomlinson Simon R., Chambers Ian, Robson Paul, et al. , EMBO Rep, 2015 Aug 11, (2015)

2014

GeneProf data: a resource of curated, integrated and reusable high-throughput genomics experiments. Halbritter, Florian, Kousa Anastasia I., and Tomlinson Simon R. , Nucleic Acids Res, 2014 Jan, Volume 42, Issue Database issue, p.D851-8, (2014)

Innate immune response precedes Mycobacterium leprae-induced reprogramming of adult Schwann cells. Masaki, Toshihiro, McGlinchey Aidan, Cholewa-Waclaw Justyna, Qu Jinrong, Tomlinson Simon R., and Rambukkana Anura , Cell Reprogram, 2014 Feb, Volume 16, Issue 1, p.9-17, (2014)

2013

Reprogramming diminishes retention of Mycobacterium leprae in Schwann cells and elevates bacterial transfer property to fibroblasts. Masaki, Toshihiro, McGlinchey Aidan, Tomlinson Simon R., Qu Jinrong, and Rambukkana Anura , F1000Res, 2013, Volume 2, p.198, (2013)

High-resolution analysis with novel cell-surface markers identifies routes to iPS cells. O'Malley, James, Skylaki Stavroula, Iwabuchi Kumiko A., Chantzoura Eleni, Ruetz Tyson, Johnsson Anna, Tomlinson Simon R., Linnarsson Sten, and Kaji Keisuke , Nature, 2013 Jul 4, Volume 499, Issue 7456, p.88-91, (2013)

Tuning of β-catenin activity is required to stabilize self-renewal of rat embryonic stem cells. Meek, Stephen, Wei Jun, Sutherland Linda, Nilges Benedikt, Buehr Mia, Tomlinson Simon R., Thomson Alison J., and Burdon Tom , Stem Cells, 2013 Oct, Volume 31, Issue 10, p.2104-15, (2013)

Dynamics of thymus organogenesis and colonization in early human development. Farley, Alison, Morris Lucy X., Vroegindeweij Eric, Depreter Marianne G. L., Vaidya Harsh Jayesh, Stenhouse Frances H., Tomlinson Simon R., Anderson Richard A., Cupedo Tom, Cornelissen Jan J., et al. , Development, 2013 May, Volume 140, Issue 9, p.2015-26, (2013)

A direct physical interaction between Nanog and Sox2 regulates embryonic stem cell self-renewal. Gagliardi, Alessia, Mullin Nicholas P., Tan Zi Ying, Colby Douglas, Kousa Anastasia I., Halbritter Florian, Weiss Jason T., Felker Anastasia, Bezstarosti Karel, Favaro Rebecca, et al. , EMBO J, 2013 Aug 14, Volume 32, Issue 16, p.2231-47, (2013)

Reduced Oct4 expression directs a robust pluripotent state with distinct signaling activity and increased enhancer occupancy by Oct4 and Nanog. Karwacki-Neisius, Violetta, Göke Jonathan, Osorno Rodrigo, Halbritter Florian, Ng Jia Hui, Weiße Andrea Y., Wong Frederick, Gagliardi Alessia, Mullin Nicholas P., Festuccia Nicola, et al. , Cell Stem Cell, 2013 May 2, Volume 12, Issue 5, p.531-45, (2013)

2012

Recurrent transcriptional clusters in the genome of mouse pluripotent stem cells. Skylaki, Stavroula, and Tomlinson Simon R. , Nucleic Acids Res, 2012 Oct, Volume 40, Issue 19, p.e153, (2012)

GeneProf: analysis of high-throughput sequencing experiments. Halbritter, Florian, Vaidya Harsh Jayesh, and Tomlinson Simon R. , Nat Methods, 2012 Jan, Volume 9, Issue 1, p.7-8, (2012)

Esrrb is a direct Nanog target gene that can substitute for Nanog function in pluripotent cells. Festuccia, Nicola, Osorno Rodrigo, Halbritter Florian, Karwacki-Neisius Violetta, Navarro Pablo, Colby Douglas, Wong Frederick, Yates Adam, Tomlinson Simon R., and Chambers Ian , Cell Stem Cell, 2012 Oct 5, Volume 11, Issue 4, p.477-90, (2012)

2010

Cultured cambial meristematic cells as a source of plant natural products. Lee, Eun-Kyong, Jin Young-Woo, Park Joong Hyun, Yoo Young Mi, Hong Sun Mi, Amir Rabia, Yan Zejun, Kwon Eunjung, Elfick Alistair, Tomlinson Simon R., et al. , Nat Biotechnol, 2010 Nov, Volume 28, Issue 11, p.1213-7, (2010)

2009

Oct4 and LIF/Stat3 additively induce Krüppel factors to sustain embryonic stem cell self-renewal. Hall, John, Guo Ge, Wray Jason, Eyres Isobel, Nichols Jennifer, Grotewold Lars, Morfopoulou Sofia, Humphreys Peter, Mansfield William, Walker Rachael, et al. , Cell Stem Cell, 2009 Dec 4, Volume 5, Issue 6, p.597-609, (2009)

The transcriptional foundation of pluripotency. Chambers, Ian, and Tomlinson Simon R. , Development, 2009 Jul, Volume 136, Issue 14, p.2311-22, (2009)

2008

Identification of Plet-1 as a specific marker of early thymic epithelial progenitor cells. Depreter, Marianne G. L., Blair Natalie F., Gaskell Terri L., Nowell Craig S., Davern Kathleen, Pagliocca Adelina, Stenhouse Frances H., Farley Alison, Fraser Adrian, Vrana Jan, et al. , Proc Natl Acad Sci U S A, 2008 Jan 22, Volume 105, Issue 3, p.961-6, (2008)

Fibroblast growth factor induces a neural stem cell phenotype in foetal forebrain progenitors and during embryonic stem cell differentiation. Pollard, Steven M., Wallbank Richard, Tomlinson Simon R., Grotewold Lars, and Smith Austin , Mol Cell Neurosci, 2008 Jul, Volume 38, Issue 3, p.393-403, (2008)

2006

Hex acts with beta-catenin to regulate anteroposterior patterning via a Groucho-related co-repressor and Nodal Zamparini, Andrea L., Watts Tim, Gardner Clare E., Tomlinson Simon R., Johnston Geoffrey I., and Brickman Joshua M. , Development, 2006 Sep, Volume 133, Issue 18, p.3709-22, (2006)

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