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Dr Sascha Ott - Recent Publications

Cell-type paper wordle

“Regulation of Cell Type-Specific Immunity Networks in Arabidopsis Roots”, Charlotte Rich-Griffin, Ruth Eichmann, Marco U Reitz, Sophie Hermann, Kate Woolley-Allen, Paul E Brown, Kate Wiwatdirekkul, Eddi Esteban, Asher Pasha, Karl-Heinz Kogel, Nicholas J Provart, Sascha Ott, Patrick Schäfer, Plant Cell, accepted, 2020
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eMSC Wordle

"Impact of sustained TGFβ receptor inhibition on chromatin accessibility and gene expression in cultured human endometrial MSC”, Raffaella Lucciola, Pavle Vrljicak, Caitlin Filby, Saeedeh Darzi, Shanti Gurung, Joanne Muter, Sascha Ott, Jan J Brosens, Caroline E Gargett, bioRxiv, 2020
link to bioRxiv

Wordle depiction of paper contents

“Recurrent pregnancy loss is associated with a pro-senescent decidual response during the peri-implantation window”, Emma S Lucas, Pavle Vrljicak, Joanne Muter, Maria M Diniz-da-Costa, Paul J Brighton, Chow-Seng Kong, Julia Lipecki, Katherine J Fishwick, Joshua Odendaal, Lauren J Ewington, Siobhan Quenby, Sascha Ott, Jan J Brosens, Communications Biology, 3: 37, 2020
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Wordle depiction of paper contents

"Single-cell transcriptomics - a high-resolution avenue for plant functional genomics”, Charlotte Rich-Griffin, Annika Stechemesser, Jessica Finch, Emma Lucas, Sascha Ott, Patrick Schäfer, Trends in Plant Science, 25: 186-197, 2020
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Wordle depiction of paper contents

“Non-Coding Mutations in Urothelial Bladder Cancer: Biological and Clinical Relevance and Potential Utility as Biomarkers”, Ruhana R Jeeta, Naheema S Gordon, Laura Baxter, Anshita Goel, Boris Noyvert, Sascha Ott, Rebecca H Boucher, Nada Humayun-Zakaria, Roland Arnold, Nicholas D James, Maurice P Zeegers, KK Cheng, Richard T Bryan, Douglas G Ward, Bladder Cancer, 5: 263-272, 2019
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Wordle 23-gene panel

“Targeted deep sequencing of urothelial bladder cancers and associated urinary DNA: a 23-gene panel with utility for non-invasive diagnosis and risk stratification”, Douglas G Ward, Naheema S Gordon, Rebecca H Boucher, Sarah J Pirrie, Laura Baxter, Sascha Ott, Lee Silcock, Celina M Whalley, Joanne D Stockton, Andrew D Beggs, Mike Griffiths, Ben Abbotts, Hanieh Ijakipour, Fathimath N Latheef, Robert A Robinson, Andrew J White, Nicholas D James, Maurice P Zeegers, KK Cheng, Richard T Bryan, BJU International, 124: 532-544, 2019
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Nodulation

“Regulation of resource partitioning coordinates nitrogen and rhizobia responses and autoregulation of nodulation in the legume Medicago truncatula”, Beatriz Lagunas, Mingkee Achom, Roxanna Bonyadi-Pour, Alonso J Pardal, Bethany L Richmond, Chrysi Sergaki, Saúl Vázquez, Patrick Schäfer, Sascha Ott, John Hammond, Miriam L Gifford, Molecular Plant, 12: 833-846, 2019
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OPCs

“Discordant perturbations of transcriptome and epigenome landscapes highlight dual roles of proinflammatory players in a prenatal model of diffuse white matter injury”, Anne-Laure Schang, Juliette van Steenwinckel, Julia Lipecki, Charlotte Rich, Kate Woolley-Allen, Nigel Dyer, Tifenn Le Charpentier, Bobbi Fleiss, Patrick Schäfer, Sascha Ott, Valérie Mezger, Délara Sabéran-Djoneidi, Pierre Gressens, bioRxiv, 2018
link to bioRxiv

ABA paper

“Circadian control of abscisic acid biosynthesis and signalling pathways revealed by genome-wide analysis of LHY binding targets”, Sally Adams, Jack Grundy, Siren R Veflingstad, Nigel P Dyer, Matthew A Hannah, Sascha Ott, Isabelle A Carré, New Phytologist, 220: 893-907, 2018
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Commentary highlighting this article

tetramers

“Peptide–MHC Class I Tetramers Can Fail To Detect Relevant Functional T Cell Clonotypes and Underestimate Antigen-Reactive T Cell Populations”, Cristina Rius, Meriem Attaf, Katie Tungatt, Valentina Bianchi, Mateusz Legut, Amandine Bovay, Marco Donia, Per thor Straten, Mark Peakman, Inge Marie Svane, Sascha Ott, Tom Connor, Barbara Szomolay, Garry Dolton and Andrew K Sewell, The Journal of Immunology, 200: 2263-2279, 2018
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FASEB ATAC-seq

“Analysis of chromatin accessibility in decidualizing human endometrial stromal cells”, Pavle Vrljicak, Emma S Lucas, Lauren Lansdowne, Raffaella Lucciola, Joanne Muter, Nigel P Dyer, Jan J Brosens, Sascha Ott, The FASEB Journal, 32: 2467-2477, 2018
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CyVerse

“Bringing numerous methods for expression and promoter analysis to a public cloud computing service”, Krzysztof Polański, Bo Gao, Sam A Mason, Paul Brown, Sascha Ott, Katherine J Denby, David L Wild, Application Note in Bioinformatics, 34: 884–886, 2018
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Fusarium

“Characterisation of pathogen-specific regions and novel effector candidates in Fusarium oxysporum f. sp. cepae", Andrew D Armitage, Andrew Taylor, Maria K Sobczyk, Laura Baxter, Bethany PJ Greenfield, Helen J Bates, Fiona Wilson, Alison C Jackson, Sascha Ott, Richard J Harrison, John P Clarkson, Scientific Reports, 8: 13530, 2018
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SGLT1

“Loss of Endometrial Sodium Glucose Cotransporter SGLT1 is Detrimental to Embryo Survival and Fetal Growth in Pregnancy”, Madhuri S Salker, Yogesh Singh, Ni Zeng, Hong Chen, Shaqiu Zhang, Anja T Umbach, Hajar Fakhri, Ursula Kohlhofer, Leticia Quintanilla-Martinez, Ruban R Peter Durairaj, Flavio SV Barros, Pavle Vrljicak, Sascha Ott, Sara Y Brucker, Diethelm Wallwiener, Ivana Vrhovac Madunić, Davorka Breljak, Ivan Sabolić, Hermann Koepsell, Jan J Brosens, Florian Lang, Scientific Reports, 7: 12612, 2017
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Signal integration

“Integration of Kinase and Calcium Signaling at the Level of Chromatin Underlies Inducible Gene Activation in T Cells”, Ruth Brignall, Pierre Cauchy, Sarah L Bevington, Bethany Gorman, Angela O Pisco, James Bagnall, Christopher Boddington, William Rowe, Hazel England, Kevin Rich, Lorraine Schmidt, Nigel P Dyer, Mark A Travis, Sascha Ott, Dean A Jackson, Peter N Cockerill and Pawel Paszek, The Journal of Immunology, 8: 2652-2667, 2017
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B12

“Low vitamin B12 in pregnancy is associated with adipose derived circulating miRs targeting PPARγ and insulin resistance”, Antonysunil Adaikalakoteswari, Manu Vatish, Mohammad Tauqeer Alam, Sascha Ott, Sudhesh Kumar, Ponnusamy Saravanan, The Journal of Clinical Endocrinology & Metabolism, 102: 4200–4209, 2017
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Senescence paper

“Clearance of senescent decidual cells by uterine natural killer cells in cycling human endometrium”, Paul J Brighton, Yojiro Maruyama, Katherine Fishwick, Pavle Vrljicak, Shreeya Tewary, Risa Fujihara, Joanne Muter, Emma S Lucas, Taihei Yamada, Laura Woods, Raffaella Lucciola, Yie Hou Lee, Satoru Takeda, Sascha Ott, Myriam Hemberger, Siobhan Quenby, Jan J Brosens, eLife, 6: e31274, 2017
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TIL paper

“PD-1+ polyfunctional T cells dominate the periphery after tumor-infiltrating lymphocyte therapy for cancer”, Marco Donia, Julie Westerlin Kjeldsen, Rikke Andersen, Marie C Wulff Westergaard, Valentina Bianchi, Mateusz Legut, Meriem Attaf, Barbara Szomolay, Sascha Ott, Garry Dolton, Rikke Lyngaa, Sine Reker Hadrup, Andrew K Sewell, Inge M Svane, Clinical Cancer Research, 19: 5779-5788, 2017
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bladder_cancer.png

“Multiplex PCR and Next Generation Sequencing for the Non-Invasive Detection of Bladder Cancer”, Douglas G Ward, Laura Baxter, Naheema S Gordon, Sascha Ott, Richard S Savage, Andrew D Beggs, Jonathan D James, Jennifer Lickiss, Shaun Green, Yvonne Wallis, Wenbin Wei, Nicholas D James, Maurice P Zeegers, KK Cheng, Glenn M Mathews, Prashant Patel, Michael Griffiths, Richard T Bryan, PLOS ONE, 11: e0149756, 2016
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RPL paper

"Loss of Endometrial Plasticity in Recurrent Pregnancy Loss", Emma S Lucas, Nigel P Dyer, Keisuke Murakami, Yie Hou Lee, Yi-Wah Chan, Giulia Grimaldi, Joanne Muter, Paul J Brighton, Jonathan D Moore, Gnyaneshwari Patel, Jerry K Y Chan, Satoru Takeda, Eric W-F Lam, Siobhan Quenby, Sascha Ott, Jan J Brosens, Stem Cells, 34: 346–356, 2016
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press release
report on Sky News


Drought

“Time-series transcriptomics reveals that AGAMOUS-LIKE22 affects primary metabolism and developmental processes in drought-stressed Arabidopsis”, Ulrike Bechtold, Christopher A Penfold, Dafyd J Jenkins, Roxane Legaie, Jonathan D Moore, Tracy Lawson, Jack SA Matthews, Silvere RM Vialet-Chabrand, Laura Baxter, Sunitha Subramaniam, Richard Hickman, Hannah Florance, Christine Sambles, Deborah L Salmon, Regina Feil, Laura Bowden, Claire Hill, Neil R Baker, John E Lunn, Bärbel Finkenstädt, Andrew Mead, Vicky Buchanan-Wollaston, Jim Beynon, David A Rand, David L Wild, Katherine J Denby, Sascha Ott, Nicholas Smirnoff, Philip M Mullineaux, Plant Cell, 28: 345-366, 2016
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pDHS paper

“Inducible chromatin priming is associated with the establishment of immunological memory in T cells”, Sarah L Bevington, Pierre Cauchy, Jason Piper, Elisabeth Bertrand, Naveen Lalli, Rebecca C Jarvis, Liam Niall Gilding, Sascha Ott, Constanze Bonifer, Peter N Cockerill, The EMBO Journal, 35: 515-535, 2016
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summary in The Pathologist

Nature Genetics

“Artifacts in the data of Hu et al.”, Nigel Dyer, Lawrence Young, Sascha Ott, Nature Genetics, 48: 2-3, 2016
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substantiating details