{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,25]],"date-time":"2025-09-25T00:23:03Z","timestamp":1758759783195,"version":"3.44.0"},"reference-count":26,"publisher":"Elsevier","isbn-type":[{"type":"print","value":"9780128159934"}],"license":[{"start":{"date-parts":[[2018,1,1]],"date-time":"2018-01-01T00:00:00Z","timestamp":1514764800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2018,1,1]],"date-time":"2018-01-01T00:00:00Z","timestamp":1514764800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018]]},"DOI":"10.1016\/bs.mie.2018.08.013","type":"book-chapter","created":{"date-parts":[[2018,9,25]],"date-time":"2018-09-25T14:15:27Z","timestamp":1537884927000},"page":"505-522","source":"Crossref","is-referenced-by-count":4,"title":["Toward Cell Type-Specific In Vivo Dual RNA-Seq"],"prefix":"10.1016","member":"78","reference":[{"key":"10.1016\/bs.mie.2018.08.013_bb0010","doi-asserted-by":"crossref","first-page":"323","DOI":"10.1186\/s12864-015-1489-1","article-title":"Dual 3' Seq using deepSuperSAGE uncovers transcriptomes of interacting Salmonella enterica Typhimurium and human host cells","volume":"16","author":"Afonso-Grunz","year":"2015","journal-title":"BMC Genomics"},{"key":"10.1016\/bs.mie.2018.08.013_bb0015","doi-asserted-by":"crossref","DOI":"10.1371\/journal.ppat.1004600","article-title":"Reprogramming of Yersinia from virulent to persistent mode revealed by complex in vivo RNA-seq analysis","volume":"11","author":"Avican","year":"2015","journal-title":"PLoS Pathogens"},{"key":"10.1016\/bs.mie.2018.08.013_bb0020","doi-asserted-by":"crossref","first-page":"85","DOI":"10.1038\/nature18849","article-title":"Interactions between the microbiota and pathogenic bacteria in the gut","volume":"535","author":"Baumler","year":"2016","journal-title":"Nature"},{"key":"10.1016\/bs.mie.2018.08.013_bb0025","doi-asserted-by":"crossref","first-page":"8","DOI":"10.4236\/aim.2014.41006","article-title":"Evaluation of ribosomal RNA removal protocols for Salmonella RNA-Seq projects","volume":"4","author":"Bhagwat","year":"2014","journal-title":"Advances in Microbiology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0030","doi-asserted-by":"crossref","first-page":"773","DOI":"10.1046\/j.1462-5822.2001.00150.x","article-title":"SLC11A1 (formerly NRAMP1) and disease resistance","volume":"3","author":"Blackwell","year":"2001","journal-title":"Cellular Microbiology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0035","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pntd.0002905","article-title":"Dual RNA-seq of parasite and host reveals gene expression dynamics during filarial worm-mosquito interactions","volume":"8","author":"Choi","year":"2014","journal-title":"PLoS Neglected Tropical Diseases"},{"key":"10.1016\/bs.mie.2018.08.013_bb0040","doi-asserted-by":"crossref","first-page":"1108","DOI":"10.1186\/s12864-015-2237-2","article-title":"Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host-pathogen interactions","volume":"16","author":"Dillon","year":"2015","journal-title":"BMC Genomics"},{"key":"10.1016\/bs.mie.2018.08.013_bb0045","doi-asserted-by":"crossref","first-page":"686","DOI":"10.1186\/s12864-017-4095-6","article-title":"Dual RNA-seq reveals no plastic transcriptional response of the coccidian parasite Eimeria falciformis to host immune defenses","volume":"18","author":"Ehret","year":"2017","journal-title":"BMC Genomics"},{"key":"10.1016\/bs.mie.2018.08.013_bb0050","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1016\/j.jmoldx.2011.01.010","article-title":"The effect of formaldehyde fixation on RNA: Optimization of formaldehyde adduct removal","volume":"13","author":"Evers","year":"2011","journal-title":"The Journal of Molecular Diagnostics"},{"key":"10.1016\/bs.mie.2018.08.013_bb0055","doi-asserted-by":"crossref","first-page":"773","DOI":"10.1369\/jhc.5A6859.2006","article-title":"Improved RT-PCR amplification for molecular analyses with long-term preserved formalin-fixed, paraffin-embedded tissue specimens","volume":"54","author":"Hamatani","year":"2006","journal-title":"The Journal of Histochemistry and Cytochemistry"},{"key":"10.1016\/bs.mie.2018.08.013_bb0060","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1158\/1078-0432.CCR-05-1275","article-title":"Vascular endothelial growth factor messenger RNA expression level is preserved in liver metastases compared with corresponding primary colorectal cancer","volume":"12","author":"Kuramochi","year":"2006","journal-title":"Clinical Cancer Research"},{"key":"10.1016\/bs.mie.2018.08.013_bb0065","doi-asserted-by":"crossref","first-page":"4376","DOI":"10.1128\/jvi.62.11.4376-4380.1988","article-title":"Functional organization of the murine leukemia virus reverse transcriptase: Characterization of a bacterially expressed AKR DNA polymerase deficient in RNase H activity","volume":"62","author":"Levin","year":"1988","journal-title":"Journal of Virology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0070","article-title":"Dual analysis of the murine cytomegalovirus and host cell transcriptomes reveal new aspects of the virus-host cell interface","volume":"9","author":"Lisnic","year":"2013","journal-title":"PLoS Pathogens"},{"key":"10.1016\/bs.mie.2018.08.013_bb0075","first-page":"E791","article-title":"Tissue dual RNA-seq allows fast discovery of infection-specific functions and riboregulators shaping host-pathogen transcriptomes","volume":"114","author":"Nuss","year":"2017","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"key":"10.1016\/bs.mie.2018.08.013_bb0080","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1111\/j.1365-2958.2009.06857.x","article-title":"Specific and pleiotropic patterns of mRNA regulation by ArcZ, a conserved, Hfq-dependent small RNA","volume":"74","author":"Papenfort","year":"2009","journal-title":"Molecular Microbiology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0085","doi-asserted-by":"crossref","first-page":"16512","DOI":"10.1038\/srep16512","article-title":"Dynamic changes in host gene expression associated with H5N8 avian influenza virus infection in mice","volume":"5","author":"Park","year":"2015","journal-title":"Scientific Reports"},{"key":"10.1016\/bs.mie.2018.08.013_bb0090","doi-asserted-by":"crossref","first-page":"806","DOI":"10.1186\/1471-2164-15-806","article-title":"Dual transcriptional profiling of mice and Toxoplasma gondii during acute and chronic infection","volume":"15","author":"Pittman","year":"2014","journal-title":"BMC Genomics"},{"key":"10.1016\/bs.mie.2018.08.013_bb0095","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1016\/j.ymeth.2018.04.035","article-title":"Selective recovery of RNAs from bacterial pathogens after their internalization by human host cells","volume":"143","author":"Raynaud","year":"2018","journal-title":"Methods"},{"key":"10.1016\/bs.mie.2018.08.013_bb0100","doi-asserted-by":"crossref","first-page":"e01775","DOI":"10.1128\/mBio.01775-14","article-title":"High-resolution transcriptomic analysis of the adaptive response of Staphylococcus aureus during acute and chronic phases of osteomyelitis","volume":"5","author":"Szafranska","year":"2014","journal-title":"MBio"},{"key":"10.1016\/bs.mie.2018.08.013_bb0105","doi-asserted-by":"crossref","first-page":"14268","DOI":"10.1038\/ncomms14268","article-title":"Host-inherent variability influences the transcriptional response of Staphylococcus aureus during in vivo infection","volume":"8","author":"Thanert","year":"2017","journal-title":"Nature Communications"},{"key":"10.1016\/bs.mie.2018.08.013_bb0110","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/s13059-016-1140-8","article-title":"Dual RNA-seq reveals viral infections in asthmatic children without respiratory illness which are associated with changes in the airway transcriptome","volume":"18","author":"Wesolowska-Andersen","year":"2017","journal-title":"Genome Biology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0115","doi-asserted-by":"crossref","DOI":"10.1371\/journal.ppat.1006033","article-title":"Resolving host-pathogen interactions by dual RNA-seq","volume":"13","author":"Westermann","year":"2017","journal-title":"PLoS Pathogens"},{"key":"10.1016\/bs.mie.2018.08.013_bb0120","doi-asserted-by":"crossref","first-page":"618","DOI":"10.1038\/nrmicro2852","article-title":"Dual RNA-seq of pathogen and host","volume":"10","author":"Westermann","year":"2012","journal-title":"Nature Reviews. Microbiology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0125","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1007\/978-1-4939-7634-8_4","article-title":"Host-pathogen transcriptomics by dual RNA-seq","volume":"1737","author":"Westermann","year":"2018","journal-title":"Methods in Molecular Biology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0130","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1016\/j.mib.2017.09.001","article-title":"Two's company: Studying interspecies relationships with dual RNA-seq","volume":"42","author":"Wolf","year":"2018","journal-title":"Current Opinion in Microbiology"},{"key":"10.1016\/bs.mie.2018.08.013_bb0135","article-title":"RNA CoMPASS: A dual approach for pathogen and host transcriptome analysis of RNA-seq datasets","volume":"9","author":"Xu","year":"2014","journal-title":"PLoS One"}],"container-title":["Methods in Enzymology","High-Density Sequencing Applications in Microbial Molecular Genetics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S007668791830291X?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S007668791830291X?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,9,24]],"date-time":"2025-09-24T21:23:53Z","timestamp":1758749033000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S007668791830291X"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018]]},"ISBN":["9780128159934"],"references-count":26,"URL":"https:\/\/doi.org\/10.1016\/bs.mie.2018.08.013","relation":{},"ISSN":["0076-6879"],"issn-type":[{"type":"print","value":"0076-6879"}],"subject":[],"published":{"date-parts":[[2018]]}}}