Genomics at the University of Essex

The University of Essex made a strategic expansion into genetics and epigenetics in 2014. We are now one of the four pillars of the School of Life Sciences with strong links with the rest of the School and with CSEE and ISER. See our recent papers.

News!

Prof Leonard C Schalkwyk

Psychiatric and Environmental Epigenomics

Dr Radu N Zabet

Functional Genomics

Dr Vladimir Teif

Chromatin and Epigenetics

Dr Antonio Marco

Evolutionary Genetics

Dr Giovanni Stracquadanio

Biological Big Data

Prof Meena Kumari

Biological and Social Epidemiology

Dr Patrick Varga-Weisz

Chromatin and Epigenetics

Dr Metodi Metodiev

Cell & Molecular Biology

Dr Nicola Barban

Genetics of Human Reproduction

Dr Ben Skinner

Structural and Evolutionary Genetics

20 Most Recent Publications

Flynn, Robert and Washer, Sam and Jeffries, Aaron R and Andrayas, Alexandria and Shireby, Gemma and Kumari, Meena and Schalkwyk, Leonard C and Mill, Jonathan and Hannon, Eilis (2022) 'Evaluation of nanopore sequencing for epigenetic epidemiology: a comparison with DNA methylation microarrays.' Human Molecular Genetics, 31 (18). pp. 3181-3190. ISSN 0964-6906

Preview

Wang, Yucheng and Gorrie-Stone, Tyler J and Grant, Olivia A and Andrayas, Alexandria D and Zhai, Xiaojun and McDonald-Maier, Klaus D and Schalkwyk, Leonard C (2022) 'InterpolatedXY: a two-step strategy to normalise DNA methylation microarray data avoiding sex bias.' Bioinformatics, 38 (16). pp. 3950-3957. ISSN 1367-4803

Preview

Bowles, Alexander MC and Paps, Jordi and Bechtold, Ulrike (2022) 'Water‐related innovations in land plants evolved by different patterns of gene co‐option and novelty.' New Phytologist, 235 (2). pp. 732-742. ISSN 0028-646X

Preview

Osuntoki, Itunu G and Harrison, Andrew and Dai, Hongsheng and Bao, Yanchun and Zabet, Nicolae Radu (2022) 'ZipHiC: a novel Bayesian framework to identify enriched interactions and experimental biases in Hi-C data.' Bioinformatics, 38 (14). btac387-btac387. ISSN 1367-4803

Preview

Shtumpf, Mariya and Piroeva, Kristan V and Agrawal, Shivam P and Jacob, Divya R and Teif, Vladimir B (2022) 'NucPosDB: a database of nucleosome positioning in vivo and nucleosomics of cell-free DNA.' Chromosoma, 131 (1-2). pp. 19-28. ISSN 0009-5915

Preview

Grant, Olivia A and Wang, Yucheng and Kumari, Meena and Zabet, Nicolae Radu and Schalkwyk, Leonard (2022) 'Characterising sex differences of autosomal DNA methylation in whole blood using the Illumina EPIC array.' Clinical Epigenetics, 14 (1). 62-. ISSN 1868-7083

Preview

Knies, Gundi and Kumari, Meena (2022) 'Multimorbidity is associated with the income, education, employment and health domains of area-level deprivation in adult residents in the UK.' Scientific Reports, 12 (1). 7280-. ISSN 2045-2322

Preview

Thorn, Graeme J and Clarkson, Christopher T and Rademacher, Anne and Mamayusupova, Hulkar and Schotta, Gunnar and Rippe, Karsten and Teif, Vladimir B (2022) 'DNA sequence-dependent formation of heterochromatin nanodomains.' Nature Communications, 13 (1). 1861-. ISSN 2041-1723

Preview

Chathoth, Keerthi and Mikheeva, Liudmila and Crevel, Gilles and Wolfe, Jareth and Hunter, Ioni and Beckett-Doyle, Saskia and Cotterill, Sue and Dai, Hongsheng and Harrison, Andrew and Zabet, Nicolae (2022) 'The role of Insulators and transcription in 3D chromatin organisation of flies.' Genome Research, 32 (4). pp. 682-698. ISSN 1054-9803 (In Press)

Preview

10.

Leung, Szi Kay and Jeffries, Aaron R and Castanho, Isabel and Jordan, Ben T and Moore, Karen and Davies, Jonathan P and Dempster, Emma L and Bray, Nicholas J and O'Neill, Paul and Tseng, Elizabeth and Ahmed, Zeshan and Collier, David A and Jeffery, Erin D and Prabhakar, Shyam and Schalkwyk, Leonard and Jops, Connor and Gandal, Michael J and Sheynkman, Gloria M and Hannon, Eilis and Mill, Jonathan (2021) 'Full-length transcript sequencing of human and mouse cerebral cortex identifies widespread isoform diversity and alternative splicing.' Cell Reports, 37 (7). p. 110022. ISSN 2211-1247

Preview

11.

Wolfe, Jareth C and Mikheeva, Liudmila A and Hagras, Hani and Zabet, Nicolae Radu (2021) 'An explainable artificial intelligence approach for decoding the enhancer histone modifications code and identification of novel enhancers in Drosophila.' Genome Biology, 22 (1). 308-. ISSN 1474-7596

Preview

12.

Ikeda, Ai and Steptoe, Andrew and Shipley, Martin and Abell, Jessica and Kumari, Meena and Tanigawa, Takeshi and Iso, Hiroyasu and Wilkinson, Ian B and McEniery, Carmel M and Singh-Manoux, Archana and Kivimaki, Mika and Brunner, Eric J (2021) 'Diurnal pattern of salivary cortisol and progression of aortic stiffness: Longitudinal study.' Psychoneuroendocrinology, 133. p. 105372. ISSN 0306-4530

Preview

13.

Mohr, Andrea and Chu, Tianyuan and Clarkson, Christopher and Brooke, Greg and Teif, Vladimir and Zwacka, Ralf (2021) 'Fas-threshold Signalling in MSCs Promotes Pancreatic Cancer Progression and Metastasis.' Cancer Letters, 519. pp. 63-77. ISSN 0304-3835

Preview

14.

Min, Josine L and Hemani, Gibran and Hannon, Eilis and Dekkers, Koen F and Castillo-Fernandez, Juan and Luijk, René and Carnero-Montoro, Elena and Lawson, Daniel J and Burrows, Kimberley and Suderman, Matthew and Bretherick, Andrew D and Richardson, Tom G and Klughammer, Johanna and Iotchkova, Valentina and Sharp, Gemma and Al Khleifat, Ahmad and Shatunov, Aleksey and Iacoangeli, Alfredo and McArdle, Wendy L and Ho, Karen M and Kumar, Ashish and Söderhäll, Cilla and Soriano-Tárraga, Carolina and Giralt-Steinhauer, Eva and Kazmi, Nabila and Mason, Dan and McRae, Allan F and Corcoran, David L and Sugden, Karen and Kasela, Silva and Cardona, Alexia and Day, Felix R and Cugliari, Giovanni and Viberti, Clara and Guarrera, Simonetta and Lerro, Michael and Gupta, Richa and Bollepalli, Sailalitha and Mandaviya, Pooja and Zeng, Yanni and Clarke, Toni-Kim and Walker, Rosie M and Schmoll, Vanessa and Czamara, Darina and Ruiz-Arenas, Carlos and Rezwan, Faisal I and Marioni, Riccardo E and Lin, Tian and Awaloff, Yvonne and Germain, Marine and Aïssi, Dylan and Zwamborn, Ramona and van Eijk, Kristel and Dekker, Annelot and van Dongen, Jenny and Hottenga, Jouke-Jan and Willemsen, Gonneke and Xu, Cheng-Jian and Barturen, Guillermo and Català-Moll, Francesc and Kerick, Martin and Wang, Carol and Melton, Phillip and Elliott, Hannah R and Shin, Jean and Bernard, Manon and Yet, Idil and Smart, Melissa and Gorrie-Stone, Tyler and Shaw, Chris and Al Chalabi, Ammar and Ring, Susan M and Pershagen, Göran and Melén, Erik and Jiménez-Conde, Jordi and Roquer, Jaume and Lawlor, Deborah A and Wright, John and Martin, Nicholas G and Montgomery, Grant W and Moffitt, Terrie E and Poulton, Richie and Esko, Tõnu and Milani, Lili and Metspalu, Andres and Perry, John RB and Ong, Ken K and Wareham, Nicholas J and Matullo, Giuseppe and Sacerdote, Carlotta and Panico, Salvatore and Caspi, Avshalom and Arseneault, Louise and Gagnon, France and Ollikainen, Miina and Kaprio, Jaakko and Felix, Janine F and Rivadeneira, Fernando and Tiemeier, Henning and van IJzendoorn, Marinus H and Uitterlinden, André G and Jaddoe, Vincent WV and Haley, Chris and McIntosh, Andrew M and Evans, Kathryn L and Murray, Alison and Räikkönen, Katri and Lahti, Jari and Nohr, Ellen A and Sørensen, Thorkild IA and Hansen, Torben and Morgen, Camilla S and Binder, Elisabeth B and Lucae, Susanne and Gonzalez, Juan Ramon and Bustamante, Mariona and Sunyer, Jordi and Holloway, John W and Karmaus, Wilfried and Zhang, Hongmei and Deary, Ian J and Wray, Naomi R and Starr, John M and Beekman, Marian and van Heemst, Diana and Slagboom, P Eline and Morange, Pierre-Emmanuel and Trégouët, David-Alexandre and Veldink, Jan H and Davies, Gareth E and de Geus, Eco JC and Boomsma, Dorret I and Vonk, Judith M and Brunekreef, Bert and Koppelman, Gerard H and Alarcón-Riquelme, Marta E and Huang, Rae-Chi and Pennell, Craig E and van Meurs, Joyce and Ikram, M Arfan and Hughes, Alun D and Tillin, Therese and Chaturvedi, Nish and Pausova, Zdenka and Paus, Tomas and Spector, Timothy D and Kumari, Meena and Schalkwyk, Leonard C and Visscher, Peter M and Davey Smith, George and Bock, Christoph and Gaunt, Tom R and Bell, Jordana T and Heijmans, Bastiaan T and Mill, Jonathan and Relton, Caroline L (2021) 'Genomic and phenotypic insights from an atlas of genetic effects on DNA methylation.' Nature Genetics, 53 (9). pp. 1311-1321. ISSN 1061-4036

Preview

15.

McKew, Boyd A and Johnson, Richard and Clothier, Lindsay and Skeels, Karl and Ross, Matthew S and Metodiev, Metodi and Frenzel, Max and Gieg, Lisa M and Martin, Jonathan W and Hough, Michael A and Whitby, Corinne (2021) 'Differential protein expression during growth on model and commercial mixtures of naphthenic acids in Pseudomonas fluorescens Pf‐5.' MicrobiologyOpen, 10 (4). e1196-. ISSN 2045-8827

Preview

16.

Bejar, Cynthia A and Goyal, Shiwali and Afzal, Shoaib and Mangino, Massimo and Zhou, Ang and van der Most, Peter J and Bao, Yanchun and Gupta, Vipin and Smart, Melissa C and Walia, Gagandeep K and Verweij, Niek and Power, Christine and Prabhakaran, Dorairaj and Singh, Jai Rup and Mehra, Narinder K and Wander, Gurpreet S and Ralhan, Sarju and Kinra, Sanjay and Kumari, Meena and de Borst, Martin H and Hyppönen, Elina and Spector, Tim D and Nordestgaard, Børge G and Blackett, Piers R and Sanghera, Dharambir K (2021) 'A Bidirectional Mendelian Randomization Study to evaluate the causal role of reduced blood vitamin D levels with type 2 diabetes risk in South Asians and Europeans.' Nutrition Journal, 20 (1). 71-. ISSN 1475-2891

Preview

17.

Wang, Yucheng and Hannon, Eilis and Grant, Olivia and Gorrie-Stone, Tyler and Kumari, Meena and Mill, Jonathan and Zhai, Xiaojun and McDonald-Maier, Klaus and Schalkwyk, Leonard (2021) 'DNA methylation-based sex classifier to predictsex and identify sex chromosome aneuploidy.' BMC Genomics, 22 (1). 484-. ISSN 1471-2164

Preview

18.

Bowles, Alexander MC and Paps, Jordi and Bechtold, Ulrike (2021) 'Evolutionary Origins of Drought Tolerance in Spermatophytes.' Frontiers in Plant Science, 12. 655924-. ISSN 1664-462X

Preview

19.

Smith, Rebecca G and Pishva, Ehsan and Shireby, Gemma and Smith, Adam R and Roubroeks, Janou AY and Hannon, Eilis and Wheildon, Gregory and Mastroeni, Diego and Gasparoni, Gilles and Riemenschneider, Matthias and Giese, Armin and Sharp, Andrew J and Schalkwyk, Leonard and Haroutunian, Vahram and Viechtbauer, Wolfgang and van den Hove, Daniel LA and Weedon, Michael and Brokaw, Danielle and Francis, Paul T and Thomas, Alan J and Love, Seth and Morgan, Kevin and Walter, Jörn and Coleman, Paul D and Bennett, David A and De Jager, Philip L and Mill, Jonathan and Lunnon, Katie (2021) 'A meta-analysis of epigenome-wide association studies in Alzheimer's disease highlights novel differentially methylated loci across cortex.' Nature Communications, 12 (1). 3517-. ISSN 2041-1723

Preview

20.

Cucinotta, Christine E and Martin, Benjamin JE and Noé González, Melvin and Raman, Pravrutha and Teif, Vladimir B and Vlaming, Hanneke (2021) 'Strength is in engagement The rise of an online scientific community during the COVID‐19 pandemic.' EMBO Reports, 22 (5). e52612-. ISSN 1469-221X

Preview

You can view a full list on the UoE repository here. University of Essex Accessibility Statement