Mapping Active Gene-Regulatory Regions in Human Repopulating Long-Term HSCs.
Peer Wünsche,Peer Wünsche,Elias S.P. Eckert,Elias S.P. Eckert,Tim Holland-Letz,Anna Paruzynski,Agnes Hotz-Wagenblatt,Raffaele Fronza,Tim Rath,Irene Gil-Farina,Manfred Schmidt,Christof von Kalle,Christoph Klein,Claudia R. Ball,Friederike Herbst,Hanno Glimm,Hanno Glimm +16 more
TLDR
It is shown that viral insertion sites can be used as molecular tags to assess chromatin conformation on functionally defined cell populations, thereby providing a genome-wide resource for regulatory regions in human repopulating long-term HSCs.About:
This article is published in Cell Stem Cell.The article was published on 2018-07-05 and is currently open access. It has received 11 citations till now.read more
Citations
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Systematic Localization of Common Disease-Associated Variation in
Matthew T. Maurano,Richard Humbert,Eric Rynes,Robert E. Thurman,Eric Haugen,Hao Wang,Alex Reynolds,Richard Sandstrom,Hongzhu Qu,Jennifer A. Brody,Anthony Shafer,Fidencio Neri,Kristen Lee,Tanya Kutyavin,Sandra Stehling-Sun,Audra K. Johnson,Theresa K. Canfield,Erika Giste,Morgan Diegel,Daniel Bates,R. Scott Hansen,Shane Neph,Peter J. Sabo,Shelly Heimfeld,Antony Raubitschek,Steven F. Ziegler,Chris Cotsapas,Nona Sotoodehnia,Ian A. Glass,Shamil R. Sunyaev,Rajinder Kaul,John A. Stamatoyannopoulos +31 more
TL;DR: The authors found that 80% of the deoxyribonuclease I hypersensitive sites (DHSs) are active during fetal development and are enriched in variants associated with gestational exposure-related phenotypes.
Journal ArticleDOI
CD19-targeting CAR T cell immunotherapy outcomes correlate with genomic modification by vector integration.
Christopher L. Nobles,Scott Sherrill-Mix,John K. Everett,Shantan Reddy,Joseph A. Fraietta,David L. Porter,Noelle V. Frey,Saar Gill,Stephan A. Grupp,Shannon L. Maude,Don L. Siegel,Bruce L. Levine,Carl H. June,Simon F. Lacey,J. Joseph Melenhorst,Frederic D. Bushman +15 more
TL;DR: It is found that data from preinfusion products forecasted response in CLL successfully in discovery and validation cohorts and, in day 28 samples, reported responders to CLL therapy with high accuracy.
Journal ArticleDOI
Detect accessible chromatin using ATAC-sequencing, from principle to applications
Yuanyuan Sun,Nan Miao,Tao Sun +2 more
TL;DR: Assay for Transposase Accessible Chromatin with high-throughput sequencing with ATAC-seq is an effective way to reveal chromatin accessibility at a genome-wide level and is becoming a powerful tool to understand dynamic gene expression regulation in stem cells, early embryos and tumors.
Journal ArticleDOI
In vivo dynamics of human hematopoietic stem cells: novel concepts and future directions
Serena Scala,Alessandro Aiuti +1 more
TL;DR: The latest updates in human hematopoietic system biology and in vivo dynamics are discussed, highlighting novel concepts and common findings deriving from different approaches and the future directions of these studies.
Journal ArticleDOI
Joint profiling of chromatin accessibility and CAR-T integration site analysis at population and single-cell levels.
Wenliang Wang,Maria Fasolino,Benjamin Cattau,Naomi Goldman,Weimin Kong,Megan A. Frederick,Sam J. McCright,Karun Kiani,Joseph A. Fraietta,Golnaz Vahedi +9 more
TL;DR: The development of a method called EpiVIA is reported for the joint profiling of the chromatin accessibility and lentiviral integration site analysis at the population and single-cell levels, which is expected to enable discovering cellular fates associated with durable CAR-T treatment.
References
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TL;DR: It is found that the boundaries of topological domains are enriched for the insulator binding protein CTCF, housekeeping genes, transfer RNAs and short interspersed element (SINE) retrotransposons, indicating that these factors may have a role in establishing the topological domain structure of the genome.
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Systematic localization of common disease-associated variation in regulatory DNA.
Matthew T. Maurano,Richard Humbert,Eric Rynes,Robert E. Thurman,Eric Haugen,Hao Wang,Alex Reynolds,Richard Sandstrom,Hongzhu Qu,Hongzhu Qu,Jennifer A. Brody,Anthony Shafer,Fidencio Neri,Kristen Lee,Tanya Kutyavin,Sandra Stehling-Sun,Audra K. Johnson,Theresa K. Canfield,Erika Giste,Morgan Diegel,Daniel Bates,R. Scott Hansen,Shane Neph,Peter J. Sabo,Shelly Heimfeld,Antony Raubitschek,Steven F. Ziegler,Chris Cotsapas,Nona Sotoodehnia,Ian A. Glass,Shamil R. Sunyaev,Rajinder Kaul,John A. Stamatoyannopoulos +32 more
TL;DR: P pervasive involvement of regulatory DNA variation in common human disease and provide pathogenic insights into diverse disorders are suggested.
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