{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,27]],"date-time":"2026-04-27T14:03:12Z","timestamp":1777298592686,"version":"3.51.4"},"reference-count":46,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2025,2,20]],"date-time":"2025-02-20T00:00:00Z","timestamp":1740009600000},"content-version":"vor","delay-in-days":12,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100008222","name":"University of Montpellier","doi-asserted-by":"publisher","award":["ANR-21-EXES-0005"],"award-info":[{"award-number":["ANR-21-EXES-0005"]}],"id":[{"id":"10.13039\/501100008222","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["104111\/Z\/14\/Z&A"],"award-info":[{"award-number":["104111\/Z\/14\/Z&A"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["218288\/Z\/19\/Z"],"award-info":[{"award-number":["218288\/Z\/19\/Z"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["213455\/Z\/18\/Z"],"award-info":[{"award-number":["213455\/Z\/18\/Z"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000853","name":"University of Glasgow","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000853","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,2,8]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Advances in sequencing technology have led to a dramatic increase in the number of single-cell transcriptomic datasets. In the field of parasitology, these datasets typically describe the gene expression patterns of a given parasite species at the single-cell level under experimental conditions, in specific hosts or tissues, or at different life cycle stages. However, while this wealth of available data represents a significant resource, analysing these datasets often requires expert computational skills, preventing a considerable proportion of the parasitology community from meaningfully integrating existing single-cell data into their work. Here, we present paraCell, a novel software tool that allows the user to visualize and analyse pre-loaded single-cell data without requiring any programming ability. The source code is free to allow remote installation. On our web server, we demonstrated how to visualize and re-analyse published Plasmodium and Trypanosoma datasets. We have also generated Toxoplasma\u2013mouse and Theileria\u2013cow scRNA-seq datasets to highlight the functionality of paraCell for pathogen\u2013host interaction. The analysis of the data highlights the impact of the host interferon-\u03b3 response and gene expression profiles associated with disease susceptibility by these intracellular parasites, respectively.<\/jats:p>","DOI":"10.1093\/nar\/gkaf091","type":"journal-article","created":{"date-parts":[[2025,2,20]],"date-time":"2025-02-20T06:52:52Z","timestamp":1740034372000},"source":"Crossref","is-referenced-by-count":4,"title":["paraCell: a novel software tool for the interactive analysis and visualization of standard and dual host\u2013parasite single-cell RNA-seq data"],"prefix":"10.1093","volume":"53","author":[{"given":"Edward","family":"Agboraw","sequence":"first","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"William","family":"Haese-Hill","sequence":"additional","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]},{"name":"MVLS SRF, R , G12 8QQ Glasgow,","place":["United Kingdom"]},{"name":"esearch Software Engineering, University of Glasgow , G12 8QQ Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Franziska","family":"Hentzschel","sequence":"additional","affiliation":[{"name":"Centre for Infectious Diseases, Heidelberg University Medical Faculty , 69120 Heidelberg ,","place":["Germany"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Emma","family":"Briggs","sequence":"additional","affiliation":[{"name":"Institute for Immunology and Infection Research, School of Biological Sciences, University of Edinburgh , EH4 2JP Edinburgh,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dana","family":"Aghabi","sequence":"additional","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anna","family":"Heawood","sequence":"additional","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Clare R","family":"Harding","sequence":"additional","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Brian","family":"Shiels","sequence":"additional","affiliation":[{"name":"School of Biodiversity, One Health & Veterinary Medicine, University of Glasgow , G61 1QH Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9310-4762","authenticated-orcid":false,"given":"Kathryn","family":"Crouch","sequence":"additional","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Domenico","family":"Somma","sequence":"additional","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1246-7404","authenticated-orcid":false,"given":"Thomas D","family":"Otto","sequence":"additional","affiliation":[{"name":"School of Infection & Immunity, University of Glasgow , G12 8TA Glasgow,","place":["United Kingdom"]},{"name":"LPHI, CNRS, INSERM, U , 34090 Montpellier,","place":["France"]},{"name":"niversit\u00e9 de Montpellier , 34090 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