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David Sims

university of oxford

47H-index
187Paper Count
1.1WCitation Count
Published Papers 71
Publication Date
Panpipes: a pipeline for multiomic single-cell and spatial transcriptomic data analysis
err2024-07-08
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errCurion, Fabiola; Rich-Griffin, Charlotte; Agarwal, Devika; Ouologuem, Sarah; Rue-Albrecht, Kevin; May, Lilly; Garcia, Giulia E. L.; Heumos, Lukas; Thomas, Tom; Lason, Wojciech; Sims, David; Theis, Fabian J.; Dendrou, Calliope A.
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C16orf72/HAPSTR1/TAPR1 Interacts with BRCA1 and Senataxin to Regulate R-loops at Stalled Replication Forks and Confer Resistance to PARP Disruption
err2024-04-15
err0
PREAI
errSharma, Abhishek Bharadwaj; Ramlee, Muhammad Khairul; Kosmin, Joel; Higgs, Martin R.; Wolstenholme, Amy; Ronson, George E.; Jones, Dylan; Ebner, Daniel; Shamkhi, Noor; Sims, David; Wijnhoven, Paul W. G.; Forment, Josep; Gibbs-Seymour, Ian; Lakin, Nicholas D.
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C16orf72/HAPSTR1/TAPR1 functions with BRCA1/Senataxin to modulate replication-associated R-loops and confer resistance to PARP disruption (vol 14, 5003, 2023)
err2023-11-27
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errSharma, Abhishek Bharadwaj; Ramlee, Muhammad Khairul; Kosmin, Joel; Higgs, Martin R.; Wolstenholme, Amy; Ronson, George E.; Jones, Dylan; Ebner, Daniel; Shamkhi, Noor; Sims, David; Wijnhoven, Paul W. G.; Forment, Josep V.; Gibbs-Seymour, Ian; Lakin, Nicholas D.
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Detailed Analysis of ITPR1 Missense Variants Guides Diagnostics and Therapeutic Design
err2023-11-14
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errTolonen, Jussi Pekka; Parolin Schnekenberg, Ricardo; McGowan, Simon; Sims, David; McEntagart, Meriel; Elmslie, Frances; Shears, Debbie; Stewart, Helen; Tofaris, George K.; Dabir, Tabib; Morrison, Patrick J.; Johnson, Diana; Hadjivassiliou, Marios; Ellard, Sian; Shaw-Smith, Charles; Znaczko, Anna; Dixit, Abhijit; Suri, Mohnish; Sarkar, Ajoy; Harrison, Rachel E.; Jones, Gabriela; Houlden, Henry; Ceravolo, Giorgia; Jarvis, Joanna; Williams, Jonathan; Shanks, Morag E.; Clouston, Penny; Rankin, Julia; Blumkin, Lubov; Lerman-Sagie, Tally; Ponger, Penina; Raskin, Salmo; Granath, Katariina; Uusimaa, Johanna; Conti, Hector; McCann, Emma; Joss, Shelagh; Blakes, Alexander J. M.; Metcalfe, Kay; Kingston, Helen; Bertoli, Marta; Kneen, Rachel; Lynch, Sally Ann; Martinez Albaladejo, Inmaculada; Moore, Austen Peter; Jones, Wendy D.; Becker, Esther B. E.; Nemeth, Andrea H.
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Single cell spatial analysis reveals inflammatory foci of immature neutrophil and CD8 T cells in COVID-19 lungs
err2023-11-08
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errWeeratunga, Praveen; Denney, Laura; Bull, Joshua A.; Repapi, Emmanouela; Sergeant, Martin; Etherington, Rachel; Vuppussetty, Chaitanya; Turner, Gareth D. H.; Clelland, Colin; Woo, Jeongmin; Cross, Amy; Issa, Fadi; de Andrea, Carlos Eduardo; Melero Bermejo, Ignacio; Sims, David; McGowan, Simon; Zurke, Yasemin-Xiomara; Ahern, David J.; Gamez, Eddie C.; Whalley, Justin; Richards, Duncan; Klenerman, Paul; Monaco, Claudia; Udalova, Irina A.; Dong, Tao; Antanaviciute, Agne; Ogg, Graham; Knight, Julian C.; Byrne, Helen M.; Taylor, Stephen; Ho, Ling-Pei
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C16orf72/HAPSTR1/TAPR1 functions with BRCA1/Senataxin to modulate replication-associated R-loops and confer resistance to PARP disruption
err2023-08-17
err3
errOAAI
errSharma, Abhishek Bharadwaj; Ramlee, Muhammad Khairul; Kosmin, Joel; Higgs, Martin R.; Wolstenholme, Amy; Ronson, George E.; Jones, Dylan; Ebner, Daniel; Shamkhi, Noor; Sims, David; Wijnhoven, Paul W. G.; Forment, Josep; Gibbs-Seymour, Ian; Lakin, Nicholas D.
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Capture-C: a modular and flexible approach for high-resolution chromosome conformation capture (vol 17, pg 445, 2022)
err2023-06-27
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errOAAI
errDownes, Damien J.; Smith, Alastair L.; Karpinska, Magdalena A.; Velychko, Taras; Rue-Albrecht, Kevin; Sims, David; Milne, Thomas A.; Davies, James O. J.; Oudelaar, A. Marieke; Hughes, Jim R.
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The NCI-MATCH trial: lessons for precision oncology
err2023-06-15
err45
PREAI
errO'Dwyer, Peter J.; Gray, Robert J.; Flaherty, Keith T.; Chen, Alice P.; Li, Shuli; Wang, Victoria; McShane, Lisa M.; Patton, David R.; Tricoli, James V.; Williams, P. Mickey; Iafrate, A. John; Sklar, Jeffrey; Mitchell, Edith P.; Takebe, Naoko; Sims, David J.; Coffey, Brent; Fu, Tony; Routbort, Mark; Rubinstein, Larry V.; Little, Richard F.; Arteaga, Carlos L.; Marinucci, Donna; Hamilton, Stanley R.; Conley, Barbara A.; Harris, Lyndsay N.; Doroshow, James H.
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Gliotransmission of D-serine promotes thirst-directed behaviors in Drosophila
err2022-09-01
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errPark, Annie; Croset, Vincent; Otto, Nils; Agarwal, Devika; Treiber, Christoph D.; Meschi, Eleonora; Sims, David; Waddell, Scott
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Capture-C: a modular and flexible approach for high-resolution chromosome conformation capture
err2022-02-04
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errOAAI
errDownes, Damien J.; Smith, Alastair L.; Karpinska, Magdalena A.; Velychko, Taras; Rue-Albrecht, Kevin; Sims, David; Milne, Thomas A.; Davies, James O. J.; Oudelaar, A. Marieke; Hughes, Jim R.
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The Molecular Analysis for Therapy Choice (NCI-MATCH) Trial: Lessons for Genomic Trial Design (vol 112, djz245, 2020)
err2021-08-21
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errOAAI
errFlaherty, Keith T.; Gray, Robert; Chen, Alice; Li, Shuli; Patton, David; Hamilton, Stanley R.; Williams, Paul M.; Mitchell, Edith P.; Iafrate, A. John; Sklar, Jeffrey; Harris, Lyndsay N.; McShane, Lisa M.; Rubinstein, Larry V.; Sims, David J.; Routbort, Mark; Coffey, Brent; Fu, Tony; Zwiebel, James A.; Little, Richard F.; Marinucci, Donna; Catalano, Robert; Magnan, Rick; Kibbe, Warren; Weil, Carol; Tricoli, James V.; Alexander, Brian; Kumar, Shaji; Schwartz, Gary K.; Meric-Bernstam, Funda; Lih, Chih-Jian; McCaskill-Stevens, Worta; Caimi, Paolo; Takebe, Naoko; Datta, Vivekananda; Arteaga, Carlos L.; Abrams, Jeffrey S.; Comis, Robert; Dwyer, Peter J. O.; Conley, Barbara A.
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Phenotypic manifestation of α-synuclein strains derived from Parkinson's disease and multiple system atrophy in human dopaminergic neurons
err2021-06-21
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errTanudjojo, Benedict; Shaikh, Samiha S.; Fenyi, Alexis; Bousset, Luc; Agarwal, Devika; Marsh, Jade; Zois, Christos; Heman-Ackah, Sabrina; Fischer, Roman; Sims, David; Melki, Ronald; Tofaris, George K.
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Germline and Somatic Genetic Variants in the p53 Pathway Interact to Affect Cancer Risk, Progression, and Drug Response
err2021-02-08
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errZhang, Ping; Kitchen-Smith, Isaac; Xiong, Lingyun; Stracquadanio, Giovanni; Brown, Katherine; Richter, Philipp H.; Wallace, Marsha D.; Bond, Elisabeth; Sahgal, Natasha; Moore, Samantha; Nornes, Svanhild; De Val, Sarah; Surakhy, Mirvat; Sims, David; Wang, Xuting; Bell, Douglas A.; Zeron-Medina, Jorge; Jiang, Yanyan; Ryan, Anderson J.; Selfe, Joanna L.; Shipley, Janet; Kar, Siddhartha; Pharoah, Paul D.; Loveday, Chey; Jansen, Rick; Grochola, Lukasz F.; Palles, Claire; Protheroe, Andrew; Millar, Val; Ebner, Daniel, V; Pagadala, Meghana; Blagden, Sarah P.; Maughan, Timothy S.; Domingo, Enric; Tomlinson, Ian; Turnbull, Clare; Carter, Hannah; Bond, Gareth L.
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Correction of amyotrophic lateral sclerosis related phenotypes in induced pluripotent stem cell-derived motor neurons carrying a hexanucleotide expansion mutation in C9orf72 by CRISPR/Cas9 genome editing using homology-directed repair
err2020-06-05
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errAbabneh, Nidaa A.; Scaber, Jakub; Flynn, Rowan; Douglas, Andrew; Barbagallo, Paola; Candalija, Ana; Turner, Martin R.; Sims, David; Dafinca, Ruxandra; Cowley, Sally A.; Talbot, Kevin
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An ontogenetic switch drives the positive and negative selection of B cells
err2020-02-04
err21
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errXu, Xijin; Deobagkar-Lele, Mukta; Bull, Katherine R.; Crockford, Tanya L.; Mead, Adam J.; Cribbs, Adam P.; Sims, David; Anzilotti, Consuelo; Cornall, Richard J.
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The Molecular Analysis for Therapy Choice (NCI-MATCH) Trial: Lessons for Genomic Trial Design
err2020-01-10
err141
errOAAI
errFlaherty, Keith T.; Gray, Robert; Chen, Alice; Li, Shuli; Patton, David; Hamilton, Stanley R.; Williams, Paul M.; Mitchell, Edith P.; Iafrate, A. John; Sklar, Jeffrey; Harris, Lyndsay N.; McShane, Lisa M.; Rubinstein, Larry, V; Sims, David J.; Routbort, Mark; Coffey, Brent; Fu, Tony; Zwiebel, James A.; Little, Richard F.; Marinucci, Donna; Catalano, Robert; Magnan, Rick; Kibbe, Warren; Weil, Carol; Tricoli, James, V; Alexander, Brian; Kumar, Shaji; Schwartz, Gary K.; Meric-Bernstam, Funda; Lih, Chih-Jian; McCaskill-Stevens, Worta; Caimi, Paolo; Takebe, Naoko; Datta, Vivekananda; Arteaga, Carlos L.; Abrams, Jeffrey S.; Comis, Robert; O'Dwyer, Peter J.; Conley, Barbara A.
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Defining the microbial transcriptional response to colitis through integrated host and microbiome profiling (vol 10, pg 2398, 2016)
err2019-11-20
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errIlott, Nicholas Edward; Bollrath, Julia; Danne, Camille; Schiering, Chris; Shale, Matthew; Adelmann, Krista; Krausgruber, Thomas; Heger, Andreas; Sims, David; Powrie, Fiona
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Embryonic progenitor pools generate diversity in fine-scale excitatory cortical subnetworks
err2019-11-19
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errEllender, Tommas J.; Avery, Sophie V.; Mahfooz, Kashif; Scaber, Jakub; von Klemperer, Alexander; Nixon, Sophie L.; Buchan, Matthew J.; van Rheede, Joram J.; Gatti, Aleksandra; Waites, Cameron; Pavlou, Hania J.; Sims, David; Newey, Sarah E.; Akerman, Colin J.
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Co-transcriptional Loading of RNA Export Factors Shapes the Human Transcriptome
err2019-07-01
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errViphakone, Nicolas; Sudbery, Ian; Griffith, Llywelyn; Heath, Catherine G.; Sims, David; Wilson, Stuart A.
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An essential role for the Zn2+ transporter ZIP7 in B cell development
err2019-02-04
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errAnzilotti, Consuelo; Swan, David J.; Boisson, Bertrand; Deobagkar-Lele, Mukta; Oliveira, Catarina; Chabosseau, Pauline; Engelhardt, Karin R.; Xu, Xijin; Chen, Rui; Alvarez, Luis; Berlinguer-Palmini, Rolando; Bull, Katherine R.; Cawthorne, Eleanor; Cribbs, Adam P.; Crockford, Tanya L.; Dang, Tarana Singh; Fearn, Amy; Fenech, Emma J.; de Jong, Sarah J.; Lagerholm, B. Christoffer; Ma, Cindy S.; Sims, David; van den Berg, Bert; Xu, Yaobo; Cant, Andrew J.; Kleiner, Gary; Leahy, T. Ronan; de la Morena, M. Teresa; Puck, Jennifer M.; Shapiro, Ralph S.; van der Burg, Mirjam; Chapman, J. Ross; Christianson, John C.; Davies, Benjamin; McGrath, John A.; Przyborski, Stefan; Koref, Mauro Santibanez; Tangye, Stuart G.; Werner, Andreas; Rutter, Guy A.; Padilla-Parra, Sergi; Casanova, Jean-Laurent; Cornall, Richard J.; Conley, Mary Ellen; Hambleton, Sophie
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