Zobrazeno 1 - 10
of 69
pro vyhledávání: '"Yunjiang Qiu"'
Autor:
Helyaneh Ziaei Jam, Yang Li, Ross DeVito, Nima Mousavi, Nichole Ma, Ibra Lujumba, Yagoub Adam, Mikhail Maksimov, Bonnie Huang, Egor Dolzhenko, Yunjiang Qiu, Fredrick Elishama Kakembo, Habi Joseph, Blessing Onyido, Jumoke Adeyemi, Mehrdad Bakhtiari, Jonghun Park, Sara Javadzadeh, Daudi Jjingo, Ezekiel Adebiyi, Vineet Bafna, Melissa Gymrek
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-15 (2023)
Abstract Tandem repeats (TRs) represent one of the largest sources of genetic variation in humans and are implicated in a range of phenotypes. Here we present a deep characterization of TR variation based on high coverage whole genome sequencing from
Externí odkaz:
https://doaj.org/article/fc3ce6b9d4d04929afdde67a60974243
Autor:
Egor Dolzhenko, Ben Weisburd, Kristina Ibañez, Indhu-Shree Rajan-Babu, Christine Anyansi, Mark F. Bennett, Kimberley Billingsley, Ashley Carroll, Samuel Clamons, Matt C. Danzi, Viraj Deshpande, Jinhui Ding, Sarah Fazal, Andreas Halman, Bharati Jadhav, Yunjiang Qiu, Phillip A. Richmond, Christopher T. Saunders, Konrad Scheffler, Joke J. F. A. van Vugt, Ramona R. A. J. Zwamborn, Genomics England Research Consortium, Samuel S. Chong, Jan M. Friedman, Arianna Tucci, Heidi L. Rehm, Michael A. Eberle
Publikováno v:
Genome Medicine, Vol 14, Iss 1, Pp 1-10 (2022)
Abstract Background Expansions of short tandem repeats are the cause of many neurogenetic disorders including familial amyotrophic lateral sclerosis, Huntington disease, and many others. Multiple methods have been recently developed that can identify
Externí odkaz:
https://doaj.org/article/018b5e0870b648eca3506644f3e08453
Autor:
Ryan J. Geusz, Allen Wang, Dieter K. Lam, Nicholas K. Vinckier, Konstantinos-Dionysios Alysandratos, David A. Roberts, Jinzhao Wang, Samy Kefalopoulou, Araceli Ramirez, Yunjiang Qiu, Joshua Chiou, Kyle J. Gaulton, Bing Ren, Darrell N. Kotton, Maike Sander
Publikováno v:
Nature Communications, Vol 12, Iss 1, Pp 1-19 (2021)
Enhancers for endodermal organs are primed at the chromatin level prior to lineage induction by FOXA pioneer transcription factors; how pervasive this is, is not well known. Here the authors show that only a small subset of organ-specific enhancers a
Externí odkaz:
https://doaj.org/article/a8ff109def3c49e6a1431185b2073726
Publikováno v:
BMC Genomics, Vol 22, Iss 1, Pp 1-19 (2021)
Abstract Background Co-localized combinations of histone modifications (“chromatin states”) have been shown to correlate with promoter and enhancer activity. Changes in chromatin states over multiple time points (“chromatin state trajectories
Externí odkaz:
https://doaj.org/article/a294f498830d4bb1a6f3ff99a0c34a6a
Autor:
Cheynna Crowley, Yuchen Yang, Yunjiang Qiu, Benxia Hu, Armen Abnousi, Jakub Lipiński, Dariusz Plewczyński, Di Wu, Hyejung Won, Bing Ren, Ming Hu, Yun Li
Publikováno v:
Computational and Structural Biotechnology Journal, Vol 19, Iss , Pp 355-362 (2021)
Hi-C experiments have been widely adopted to study chromatin spatial organization, which plays an essential role in genome function. We have recently identified frequently interacting regions (FIREs) and found that they are closely associated with ce
Externí odkaz:
https://doaj.org/article/701286bf47904930ae0d2a8163cdc2f0
Autor:
David U. Gorkin, Yunjiang Qiu, Ming Hu, Kipper Fletez-Brant, Tristin Liu, Anthony D. Schmitt, Amina Noor, Joshua Chiou, Kyle J. Gaulton, Jonathan Sebat, Yun Li, Kasper D. Hansen, Bing Ren
Publikováno v:
Genome Biology, Vol 20, Iss 1, Pp 1-25 (2019)
Abstract Background The 3-dimensional (3D) conformation of chromatin inside the nucleus is integral to a variety of nuclear processes including transcriptional regulation, DNA replication, and DNA damage repair. Aberrations in 3D chromatin conformati
Externí odkaz:
https://doaj.org/article/738364812c1442488fcb3745e3e40de9
Autor:
William W. Greenwald, Joshua Chiou, Jian Yan, Yunjiang Qiu, Ning Dai, Allen Wang, Naoki Nariai, Anthony Aylward, Jee Yun Han, Nikita Kadakia, Laura Regue, Mei-Lin Okino, Frauke Drees, Dana Kramer, Nicholas Vinckier, Liliana Minichiello, David Gorkin, Joseph Avruch, Kelly A. Frazer, Maike Sander, Bing Ren, Kyle J. Gaulton
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-12 (2019)
Risk loci for type 2 diabetes (T2D) reside in pancreatic islet enhancers. Here, the authors generate high-resolution maps of islet chromatin conformation using Hi-C which they combine with ATAC-seq and ChIP-seq data to annotate candidate target genes
Externí odkaz:
https://doaj.org/article/2308d1b8b59042bb8921a23b1acf35fe
Autor:
Mark J. P. Chaisson, Ashley D. Sanders, Xuefang Zhao, Ankit Malhotra, David Porubsky, Tobias Rausch, Eugene J. Gardner, Oscar L. Rodriguez, Li Guo, Ryan L. Collins, Xian Fan, Jia Wen, Robert E. Handsaker, Susan Fairley, Zev N. Kronenberg, Xiangmeng Kong, Fereydoun Hormozdiari, Dillon Lee, Aaron M. Wenger, Alex R. Hastie, Danny Antaki, Thomas Anantharaman, Peter A. Audano, Harrison Brand, Stuart Cantsilieris, Han Cao, Eliza Cerveira, Chong Chen, Xintong Chen, Chen-Shan Chin, Zechen Chong, Nelson T. Chuang, Christine C. Lambert, Deanna M. Church, Laura Clarke, Andrew Farrell, Joey Flores, Timur Galeev, David U. Gorkin, Madhusudan Gujral, Victor Guryev, William Haynes Heaton, Jonas Korlach, Sushant Kumar, Jee Young Kwon, Ernest T. Lam, Jong Eun Lee, Joyce Lee, Wan-Ping Lee, Sau Peng Lee, Shantao Li, Patrick Marks, Karine Viaud-Martinez, Sascha Meiers, Katherine M. Munson, Fabio C. P. Navarro, Bradley J. Nelson, Conor Nodzak, Amina Noor, Sofia Kyriazopoulou-Panagiotopoulou, Andy W. C. Pang, Yunjiang Qiu, Gabriel Rosanio, Mallory Ryan, Adrian Stütz, Diana C. J. Spierings, Alistair Ward, AnneMarie E. Welch, Ming Xiao, Wei Xu, Chengsheng Zhang, Qihui Zhu, Xiangqun Zheng-Bradley, Ernesto Lowy, Sergei Yakneen, Steven McCarroll, Goo Jun, Li Ding, Chong Lek Koh, Bing Ren, Paul Flicek, Ken Chen, Mark B. Gerstein, Pui-Yan Kwok, Peter M. Lansdorp, Gabor T. Marth, Jonathan Sebat, Xinghua Shi, Ali Bashir, Kai Ye, Scott E. Devine, Michael E. Talkowski, Ryan E. Mills, Tobias Marschall, Jan O. Korbel, Evan E. Eichler, Charles Lee
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-16 (2019)
Structural variants (SVs) in human genomes contribute diversity and diseases. Here, the authors use a multi-platform strategy to generate haplotype-resolved SVs for three human parent–child trios.
Externí odkaz:
https://doaj.org/article/1bf8e1b79b09479e9b177f1082c620e1
Pancreatic progenitor epigenome maps prioritize type 2 diabetes risk genes with roles in development
Autor:
Ryan J Geusz, Allen Wang, Joshua Chiou, Joseph J Lancman, Nichole Wetton, Samy Kefalopoulou, Jinzhao Wang, Yunjiang Qiu, Jian Yan, Anthony Aylward, Bing Ren, P Duc Si Dong, Kyle J Gaulton, Maike Sander
Publikováno v:
eLife, Vol 10 (2021)
Genetic variants associated with type 2 diabetes (T2D) risk affect gene regulation in metabolically relevant tissues, such as pancreatic islets. Here, we investigated contributions of regulatory programs active during pancreatic development to T2D ri
Externí odkaz:
https://doaj.org/article/ae2ad6bb2f8440508324b4fcde2ff75c
Autor:
Ivan Juric, Miao Yu, Armen Abnousi, Ramya Raviram, Rongxin Fang, Yuan Zhao, Yanxiao Zhang, Yunjiang Qiu, Yuchen Yang, Yun Li, Bing Ren, Ming Hu
Publikováno v:
PLoS Computational Biology, Vol 15, Iss 4, p e1006982 (2019)
Hi-C and chromatin immunoprecipitation (ChIP) have been combined to identify long-range chromatin interactions genome-wide at reduced cost and enhanced resolution, but extracting information from the resulting datasets has been challenging. Here we d
Externí odkaz:
https://doaj.org/article/accc96cc2ce545d4a2caa5aba2236ffa