By Dr Kylie Renee James

Preprints

Gwynne M; West KA; van Dongen S; Kourtzelis I; Coverley D; Teichmann SA; James KR; Hewitson JP; Lagos D, 2024, Malat1regulates female Th2 cell cytokine expression through controlling early differentiation and response to IL2, http://dx.doi.org/10.1101/2024.10.23.619648

Tearle JLE; Zhang F; Jackson KJL; Malhotra P; Tavakoli P; Koentgen S; Warren J; Williams C; Haque A; Arzivian A; Tedla N; Kim A; King HW; Hold GL; Ghaly S; James KR, 2024, The primary sclerosing cholangitis and ulcerative colitis colonic mucosa defined through paired microbial and single-cell RNA sequencing, http://dx.doi.org/10.1101/2024.08.12.607536

Levinger R; Tussia-Cohen D; Friedman S; Lender Y; Nissan Y; Fraimovitch E; Gavriel Y; Tearle J; Kolodziejczyk AA; Gomes T; Kunowska N; Weinberg M; Donati G; James KR; Yovel Y; Hagai T, 2023, Spatial and single-cell transcriptomics illuminate bat immunity and barrier tissue evolution, http://dx.doi.org/10.1101/2023.10.30.564705

Krzak M; Alegbe T; Taylor DL; Ghouraba M; Strickland M; Satti R; Thompson T; Arestang K; Przybilla MJ; Ramirez-Navarro L; Harris BT; Cheam KAX; Noell G; Leonard S; Petrova V; Jones-Bell C; James KR; Wana N; Hu MX; Skelton J; Ostermayer J; Gu Y; Dawson C; Corridoni D; Martin CC; Parkes M; Iyer V; Jones G-R; McIntyre RE; Raine T; Anderson CA, 2023, Single-cell RNA sequencing reveals dysregulated cellular programmes in the inflamed epithelium of Crohn’s disease patients, http://dx.doi.org/10.1101/2023.09.06.23295056

Stewart B; Fergie M; Young M; Jones C; Sachdeva A; Blain A; Bacon C; Rand V; Ferdinand J; James K; Mahbubani K; Hook L; Jonas N; Coleman N; Saeb-Parsy K; Collin M; Clatworthy M; Behjati S; Carey C, 2022, Spatial and molecular profiling reveals an immunosuppressive mononuclear phagocyte network in Classic Hodgkin lymphoma, http://dx.doi.org/10.21203/rs.3.rs-1233380/v3

Stewart B; Fergie M; Young M; Jones C; Sachdeva A; Blain A; Bacon C; Rand V; Ferdinand J; James K; Mahbubani K; Hook L; Jonas N; Coleman N; Saeb-Parsy K; Collin M; Clatworthy M; Behjati S; Carey C, 2022, Spatial and molecular profiling of classic Hodgkin lymphoma reveals an immunosuppressive mononuclear phagocyte network, http://dx.doi.org/10.21203/rs.3.rs-1233380/v2

Stewart B; Fergie M; Young M; Jones C; Sachdeva A; Blain A; Bacon C; Rand V; Ferdinand J; James K; Mahbubani K; Hook L; Jonas N; Coleman N; Saeb-Parsy K; Collin M; Clatworthy M; Behjati S; Carey C, 2022, Spatial and molecular profiling of the classic Hodgkin lymphoma microenvironment reveals an immunosuppressive mononuclear phagocyte network, http://dx.doi.org/10.21203/rs.3.rs-1233380/v1

Elmentaite R; Kumasaka N; King HW; Roberts K; Dabrowska M; Pritchard S; Bolt L; Vieira SF; Mamanova L; Huang N; Goh Kai’En I; Stephenson E; Engelbert J; Botting RA; Fleming A; Dann E; Lisgo SN; Katan M; Leonard S; Oliver TRW; Hook CE; Nayak K; Perrone F; Campos LS; Dominguez-Conde C; Polanski K; Van Dongen S; Patel M; Morgan MD; Marioni JC; Bayraktar OA; Meyer KB; Zilbauer M; Uhlig H; Clatworthy MR; Mahbubani KT; Saeb Parsy K; Haniffa M; James KR; Teichmann SA, 2021, Cells of the human intestinal tract mapped across space and time, http://dx.doi.org/10.1101/2021.04.07.438755

Elmentaite R; Ross A; James K; Ortmann D; Gomes T; Roberts K; Nayak K; Tuck L; Bayraktar OA; Heuschkel R; Vallier L; Teichmann S; Zilbauer M, 2020, Single-cell sequencing of developing human gut reveals transcriptional links to childhood Crohn’s disease, http://dx.doi.org/10.1101/2020.02.06.937110

James KR; Gomes T; Elmentaite R; Kumar N; Gulliver EL; King HW; Stares MD; Bareham BR; Ferdinand JR; Petrova VN; Polanski K; Forster SC; Jarvis LB; Suchanek O; Howlett S; James LK; Jones JL; Meyer KB; Clatworthy MR; Saeb-Parsy K; Lawley TD; Teichmann SA, 2019, Distinct microbial and immune niches of the human colon, http://dx.doi.org/10.1101/2019.12.12.871657

Soon M; Lee HJ; Engel J; Straube J; Thomas B; Clarke L; Laohamonthonkul P; Pernold C; Haldar R; Williams C; Lansink L; Koufariotis R; Lakis V; Wood S; Chen X; James K; Lönnberg T; Lane S; Davenport M; Khoury D; Svensson V; Teichmann S; Haque A, 2019, Transcriptome Dynamics Reveals Progressive Transition from Effector to Memory in CD4⁺T cells, http://dx.doi.org/10.1101/675967

James K, 2018, Human colon tissue dissociation for immune cells v1, http://dx.doi.org/10.17504/protocols.io.tbfeijn

James K, 2018, Gut_All Cells_Human v1, http://dx.doi.org/10.17504/protocols.io.q3xdypn

Fernandez-Ruiz D; Lau LS; Ghazanfari N; Jones C; Ng WY; Davey G; Berthold D; Holz L; Kato Y; Bayarsaikhan G; Hendriks S; James K; Cozijnsen A; Mollard V; de Koning-Ward T; Gilson P; Kaisho T; Haque A; Crabb B; Carbone F; McFadden G; Heath W, 2017, Development of a Novel CD4⁺TCR Transgenic Line that Reveals a Dominant Role for CD8⁺DC and CD40-Signaling in the Generation of Helper and CTL Responses to Blood Stage Malaria, http://dx.doi.org/10.1101/113837

Lönnberg T; Svensson V; James KR; Fernandez-Ruiz D; Sebina I; Montandon R; Soon MSF; Fogg LG; Stubbington MJT; Otzen Bagger F; Zwiessele M; Lawrence N; Souza-Fonseca-Guimaraes F; Heath WR; Billker O; Stegle O; Haque A; Teichmann SA, 2016, Temporal mixture modelling of single-cell RNA-seq data resolves a CD4⁺T cell fate bifurcation, http://dx.doi.org/10.1101/074971

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