{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,27]],"date-time":"2026-09-27T09:13:59Z","timestamp":1790500439268,"version":"4.1.0"},"reference-count":20,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2013,10,1]],"date-time":"2013-10-01T00:00:00Z","timestamp":1380585600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,10,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Our understanding of system dynamics of mixed cell populations in whole organisms has benefited from the advent of individual cell marking by nonarrayed DNA barcodes subsequently analyzed by high-throughput DNA sequencing. However, key limitations include statistical biases compromising quantification and the lack of applicability to deconvolute individual cell fate in vivo after pooling single cells differentially exposed to different conditions ex vivo. Here, we have derived an arrayed lentiviral library of DNA barcodes and obtained a proof-of-concept of its resolving capacity by quantifying hematopoietic regeneration after engraftment of mice with genetically modified autologous cells. This method has helped clarify and bridge the seemingly opposed clonal-succession and continuous-recruitment models of hematopoietic stem cell behavior and revealed that myeloid-lymphoid biases are common occurrences in steady-state hematopoiesis. Arrayed lentiviral barcoding should prove a versatile and powerful approach to deconvolute cell dynamics in vivo with applications in hematology, embryology, and cancer biology.<\/jats:p>","DOI":"10.1002\/stem.1383","type":"journal-article","created":{"date-parts":[[2013,4,4]],"date-time":"2013-04-04T08:14:37Z","timestamp":1365063277000},"page":"2162-2171","source":"Crossref","is-referenced-by-count":27,"title":["Arrayed lentiviral barcoding for quantification analysis of hematopoietic dynamics"],"prefix":"10.1093","volume":"31","author":[{"given":"Jeanne","family":"Grosselin","sequence":"first","affiliation":[{"name":"CEA, Institute of Emerging Diseases and Innovative Therapies (iMETI), F-92265 Fontenay-aux-Roses, Paris, France"},{"name":"Inserm U962 and University Paris Sud 11, CEA-iMETI, F-92265 Fontenay-aux-Roses, Paris, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Karine","family":"Sii-Felice","sequence":"additional","affiliation":[{"name":"CEA, Institute of Emerging Diseases and Innovative Therapies (iMETI), F-92265 Fontenay-aux-Roses, Paris, France"},{"name":"Inserm U962 and University Paris Sud 11, CEA-iMETI, F-92265 Fontenay-aux-Roses, Paris, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Emmanuel","family":"Payen","sequence":"additional","affiliation":[{"name":"CEA, Institute of Emerging Diseases and Innovative Therapies (iMETI), F-92265 Fontenay-aux-Roses, Paris, France"},{"name":"Inserm U962 and University Paris Sud 11, CEA-iMETI, F-92265 Fontenay-aux-Roses, Paris, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stany","family":"Chretien","sequence":"additional","affiliation":[{"name":"CEA, Institute of Emerging Diseases and Innovative Therapies (iMETI), F-92265 Fontenay-aux-Roses, Paris, France"},{"name":"Inserm U962 and University Paris Sud 11, CEA-iMETI, F-92265 Fontenay-aux-Roses, Paris, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Diana Tronik-Le","family":"Roux","sequence":"additional","affiliation":[{"name":"CEA, Institute of Emerging Diseases and Innovative Therapies (iMETI), F-92265 Fontenay-aux-Roses, Paris, France"},{"name":"Inserm U962 and University Paris Sud 11, CEA-iMETI, F-92265 Fontenay-aux-Roses, Paris, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Philippe","family":"Leboulch","sequence":"additional","affiliation":[{"name":"CEA, Institute of Emerging Diseases and Innovative Therapies (iMETI), F-92265 Fontenay-aux-Roses, Paris, France"},{"name":"Inserm U962 and University Paris Sud 11, CEA-iMETI, F-92265 Fontenay-aux-Roses, Paris, France"},{"name":"Genetics Division, Brigham & Women's Hospital and Harvard Medical School, Boston, Massachusetts, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2013,10,28]]},"reference":[{"key":"2022011118415056200_stem1383-bib-0001","doi-asserted-by":"crossref","first-page":"1813","DOI":"10.1056\/NEJMra052638","article-title":"Hematopoietic stem-cell transplantation","volume":"354","author":"Copelan","year":"2006","journal-title":"N Engl J Med"},{"key":"2022011118415056200_stem1383-bib-0002","doi-asserted-by":"crossref","first-page":"857","DOI":"10.1111\/j.1750-3639.2010.00394.x","article-title":"Hematopoietic stem cell transplantation and hematopoietic stem cell gene therapy in X-linked adrenoleukodystrophy","volume":"20","author":"Cartier","year":"2010","journal-title":"Brain Pathol"},{"key":"2022011118415056200_stem1383-bib-0003","doi-asserted-by":"crossref","first-page":"318","DOI":"10.1038\/nature09328","article-title":"Transfusion independence and HMGA2 activation after gene therapy of human beta-thalassaemia","volume":"467","author":"Cavazzana-Calvo","year":"2010","journal-title":"Nature"},{"key":"2022011118415056200_stem1383-bib-0004","doi-asserted-by":"crossref","first-page":"423","DOI":"10.1038\/nm0502-423","article-title":"Immune reconstitution in ADA-SCID after PBL gene therapy and discontinuation of enzyme replacement","volume":"8","author":"Aiuti","year":"2002","journal-title":"Nat Med"},{"key":"2022011118415056200_stem1383-bib-0005","doi-asserted-by":"crossref","first-page":"669","DOI":"10.1126\/science.288.5466.669","article-title":"Gene therapy of human severe combined immunodeficiency (SCID)-X1 disease","volume":"288","author":"Cavazzana-Calvo","year":"2000","journal-title":"Science"},{"key":"2022011118415056200_stem1383-bib-0006","doi-asserted-by":"crossref","first-page":"818","DOI":"10.1126\/science.1171242","article-title":"Hematopoietic stem cell gene therapy with a lentiviral vector in X-linked adrenoleukodystrophy","volume":"326","author":"Cartier","year":"2009","journal-title":"Science"},{"key":"2022011118415056200_stem1383-bib-0007","doi-asserted-by":"crossref","first-page":"2610","DOI":"10.1182\/blood-2009-06-229757","article-title":"Cellular barcoding tool for clonal analysis in the hematopoietic system","volume":"115","author":"Gerrits","year":"2010","journal-title":"Blood"},{"key":"2022011118415056200_stem1383-bib-0008","doi-asserted-by":"crossref","first-page":"2309","DOI":"10.1084\/jem.20072462","article-title":"Dissecting T cell lineage relationships by cellular barcoding","volume":"205","author":"Schepers","year":"2008","journal-title":"J Exp Med"},{"key":"2022011118415056200_stem1383-bib-0009","doi-asserted-by":"crossref","first-page":"928","DOI":"10.1038\/nbt.1977","article-title":"Tracking single hematopoietic stem cells in vivo using high-throughput sequencing in conjunction with viral genetic barcoding","volume":"29","author":"Lu","year":"2011","journal-title":"Nat Biotechnol"},{"key":"2022011118415056200_stem1383-bib-0010","doi-asserted-by":"crossref","first-page":"390","DOI":"10.1016\/j.stem.2011.10.013","article-title":"You can count on this: Barcoded hematopoietic stem cells","volume":"9","author":"Glimm","year":"2011","journal-title":"Cell Stem Cell"},{"key":"2022011118415056200_stem1383-bib-0011","doi-asserted-by":"crossref","first-page":"15468","DOI":"10.1073\/pnas.202614899","article-title":"Identification of endoglin as a functional marker that defines long-term repopulating hematopoietic stem cells","volume":"99","author":"Chen","year":"2002","journal-title":"Proc Natl Acad Sci USA"},{"key":"2022011118415056200_stem1383-bib-0012","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1016\/S1074-7613(03)00265-6","article-title":"The endoglin(positive) sca-1(positive) rhodamine(low) phenotype defines a near-homogeneous population of long-term repopulating hematopoietic stem cells","volume":"19","author":"Chen","year":"2003","journal-title":"Immunity"},{"key":"2022011118415056200_stem1383-bib-0013","doi-asserted-by":"crossref","first-page":"218","DOI":"10.1016\/j.stem.2007.05.015","article-title":"Long-term propagation of distinct hematopoietic differentiation programs in vivo","volume":"1","author":"Dykstra","year":"2007","journal-title":"Cell Stem Cell"},{"key":"2022011118415056200_stem1383-bib-0014","doi-asserted-by":"crossref","first-page":"567","DOI":"10.1038\/nmeth.2043","article-title":"Counting stem cells: Methodological constraints","volume":"9","author":"Bystrykh","year":"2012","journal-title":"Nat Methods"},{"key":"2022011118415056200_stem1383-bib-0015","doi-asserted-by":"crossref","first-page":"4356","DOI":"10.1182\/blood-2009-12-257352","article-title":"Dynamics of gene-modified progenitor cells analyzed by tracking retroviral integration sites in a human SCID-X1 gene therapy trial","volume":"115","author":"Wang","year":"2010","journal-title":"Blood"},{"issue":"suppl 3","key":"2022011118415056200_stem1383-bib-0016","doi-asserted-by":"crossref","first-page":"S8","DOI":"10.1186\/1471-2164-12-S3-S8","article-title":"Perfect Hamming code with a hash table for faster genome mapping","volume":"12","author":"Takenaka","year":"2011","journal-title":"BMC Genomics"},{"key":"2022011118415056200_stem1383-bib-0017","doi-asserted-by":"crossref","first-page":"1171","DOI":"10.1126\/science.1105063","article-title":"Clonal dominance of hematopoietic stem cells triggered by retroviral gene marking","volume":"308","author":"Kustikova","year":"2005","journal-title":"Science"},{"key":"2022011118415056200_stem1383-bib-0018","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1101\/gad.4.2.220","article-title":"Clonal and systemic analysis of long-term hematopoiesis in the mouse","volume":"4","author":"Jordan","year":"1990","journal-title":"Genes Dev"},{"key":"2022011118415056200_stem1383-bib-0019","doi-asserted-by":"crossref","first-page":"4420","DOI":"10.1182\/blood-2010-09-255679","article-title":"Is normal hematopoiesis maintained solely by long-term multipotent stem cells?","volume":"117","author":"Cavazzana-Calvo","year":"2011","journal-title":"Blood"},{"key":"2022011118415056200_stem1383-bib-0020","doi-asserted-by":"crossref","first-page":"1225","DOI":"10.1038\/ni1393","article-title":"Individual stem cells with highly variable proliferation and self-renewal properties comprise the human hematopoietic stem cell compartment","volume":"7","author":"Mckenzie","year":"2006","journal-title":"Nat Immunol"}],"container-title":["Stem Cells"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.wiley.com\/onlinelibrary\/tdm\/v1\/articles\/10.1002%2Fstem.1383","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/stem.1383","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/full-xml\/10.1002\/stem.1383","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/academic.oup.com\/stmcls\/article-pdf\/31\/10\/2162\/41979434\/stmcls_31_10_2162.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/stmcls\/article-pdf\/31\/10\/2162\/41979434\/stmcls_31_10_2162.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,1,19]],"date-time":"2022-01-19T02:49:16Z","timestamp":1642560556000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/stmcls\/article\/31\/10\/2162-2171\/6408102"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,10,1]]},"references-count":20,"journal-issue":{"issue":"10","published-online":{"date-parts":[[2013,10,28]]},"published-print":{"date-parts":[[2013,10,1]]}},"URL":"https:\/\/doi.org\/10.1002\/stem.1383","relation":{},"ISSN":["1066-5099","1549-4918"],"issn-type":[{"value":"1066-5099","type":"print"},{"value":"1549-4918","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2013,10,1]]},"published":{"date-parts":[[2013,10,1]]}}}