Zobrazeno 1 - 9
of 9
pro vyhledávání: '"Jiazhen Rong"'
Autor:
Kaishu Mason, Anuja Sathe, Paul R. Hess, Jiazhen Rong, Chi-Yun Wu, Emma Furth, Katalin Susztak, Jonathan Levinsohn, Hanlee P. Ji, Nancy Zhang
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-33 (2024)
Abstract Existing methods for analysis of spatial transcriptomic data focus on delineating the global gene expression variations of cell types across the tissue, rather than local gene expression changes driven by cell-cell interactions. We propose a
Externí odkaz:
https://doaj.org/article/584d5b43dfac4a9b8622ba36a4824e07
Autor:
Rodrigo A. Gier, Raúl A. Reyes Hueros, Jiazhen Rong, Maureen DeMarshall, Tatiana A. Karakasheva, Amanda B. Muir, Gary W. Falk, Nancy R. Zhang, Sydney M. Shaffer
Publikováno v:
bioRxiv
Barrett’s esophagus is a common type of metaplasia and a precursor of esophageal adenocarcinoma. However, the cell states and lineage connections underlying the origin, maintenance, and progression of Barrett’s esophagus have not been resolved in
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b7ca99833955bcc7a5549f8010cd5991
https://europepmc.org/articles/PMC9900873/
https://europepmc.org/articles/PMC9900873/
Autor:
Kaishu Mason, Anuja Sathe, Paul Hess, Jiazhen Rong, Chi-Yun Wu, Emma Furth, Hanlee P. Ji, Nancy Zhang
Single cells influence, and are shaped by, their local spatial niche. Technologies for in situ measurement of gene expression at the transcriptome scale have enabled the detailed profiling of the spatial distributions of cell types in tissue as well
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::b1694a4e519d74a6cc5c2d5c37004bba
https://doi.org/10.1101/2023.01.03.522646
https://doi.org/10.1101/2023.01.03.522646
It remains poorly understood how different cell types organize and coordinate with each other to support tissue functions. We describe CytoCommunity for identification of tissue cellular neighborhoods (TCNs) based on cell phenotypes and their spatial
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::1adb26f2950ab48ab7c20a73ae614250
https://doi.org/10.1101/2022.11.06.515344
https://doi.org/10.1101/2022.11.06.515344
Autor:
Nancy Zhang, Chi-Yun Wu, Anuja Sathe, Jiazhen Rong, Paul Hess, Billy Lau, Susan M Grimes, Hanlee Ji
In cancer, somatic mutations such as copy number alterations (CNAs) accumulate during disease progression and lead to functional intra-tumor heterogeneity that can influence the efficacy of cancer therapy. Therefore, studying the functional character
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::e7e4f94a3e45b1a065763e55ae07887b
https://doi.org/10.21203/rs.3.rs-1838921/v1
https://doi.org/10.21203/rs.3.rs-1838921/v1
Autor:
Chi-Yun Wu, Anuja Sathe, Jiazhen Rong, Paul R. Hess, Billy T. Lau, Susan M. Grimes, Hanlee P. Ji, Nancy R. Zhang
In cancer, somatic mutations such as copy number alterations (CNAs) accumulate during disease progression and lead to functional intra-tumor heterogeneity that can influence the efficacy of cancer therapy. Therefore, studying the functional character
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::8d165844e3968d757d296b559bf66819
https://doi.org/10.1101/2022.07.05.498882
https://doi.org/10.1101/2022.07.05.498882
Autor:
Chi-Yun Wu, Paul R. Hess, Anuja Sathe, Jiazhen Rong, Billy T. Lau, Susan M. Grimes, Hanlee P. Ji, Nancy R. Zhang
Publikováno v:
Cancer Research. 82:5042-5042
Cancer results from somatic mutations such as copy number alterations (CNAs) that continue to accumulate during disease progression. These mutations can lead to functional heterogeneity within tumors and can influence the efficacy of cancer therapy.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::8d68140fb4b8dbbc89e43578a6c42f06
https://doi.org/10.1158/1538-7445.am2022-5042
https://doi.org/10.1158/1538-7445.am2022-5042
Autor:
Heng Li, Jiazhen Rong
SummaryWe present bedtk, a new toolkit for manipulating genomic intervals in the BED format. It supports sorting, merging, intersection, subtraction and the calculation of the breadth of coverage. Bedtk employs implicit interval tree, a new data stru
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::91685b455dc993823e6fd3d718116f19
https://doi.org/10.1101/2020.07.07.190744
https://doi.org/10.1101/2020.07.07.190744
Autor:
Jiazhen Rong, Heng Li
Publikováno v:
Bioinformatics
Summary We present bedtk, a new toolkit for manipulating genomic intervals in the BED format. It supports sorting, merging, intersection, subtraction and the calculation of the breadth of coverage. Bedtk uses implicit interval tree, a data structure
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a6a2c94b627fecf7939dd320ab4a3a8e
https://doi.org/10.1093/bioinformatics/btaa827
https://doi.org/10.1093/bioinformatics/btaa827