Zobrazeno 1 - 10
of 100
pro vyhledávání: '"Koon-Kiu Yan"'
Autor:
Xinran Dong, Liang Ding, Andrew Thrasher, Xinge Wang, Jingjing Liu, Qingfei Pan, Jordan Rash, Yogesh Dhungana, Xu Yang, Isabel Risch, Yuxin Li, Lei Yan, Michael Rusch, Clay McLeod, Koon-Kiu Yan, Junmin Peng, Hongbo Chi, Jinghui Zhang, Jiyang Yu
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-10 (2023)
Abstract Many signaling and other genes known as “hidden” drivers may not be genetically or epigenetically altered or differentially expressed at the mRNA or protein levels, but, rather, drive a phenotype such as tumorigenesis via post-translatio
Externí odkaz:
https://doaj.org/article/14c0f151bd884b528e374cdf295c69fb
Autor:
Jing Zhang, Donghoon Lee, Vineet Dhiman, Peng Jiang, Jie Xu, Patrick McGillivray, Hongbo Yang, Jason Liu, William Meyerson, Declan Clarke, Mengting Gu, Shantao Li, Shaoke Lou, Jinrui Xu, Lucas Lochovsky, Matthew Ung, Lijia Ma, Shan Yu, Qin Cao, Arif Harmanci, Koon-Kiu Yan, Anurag Sethi, Gamze Gürsoy, Michael Rutenberg Schoenberg, Joel Rozowsky, Jonathan Warrell, Prashant Emani, Yucheng T. Yang, Timur Galeev, Xiangmeng Kong, Shuang Liu, Xiaotong Li, Jayanth Krishnan, Yanlin Feng, Juan Carlos Rivera-Mulia, Jessica Adrian, James R Broach, Michael Bolt, Jennifer Moran, Dominic Fitzgerald, Vishnu Dileep, Tingting Liu, Shenglin Mei, Takayo Sasaki, Claudia Trevilla-Garcia, Su Wang, Yanli Wang, Chongzhi Zang, Daifeng Wang, Robert J. Klein, Michael Snyder, David M. Gilbert, Kevin Yip, Chao Cheng, Feng Yue, X. Shirley Liu, Kevin P. White, Mark Gerstein
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-11 (2020)
ENCODE is a resource comprising thousands of functional genomic datasets. Here, the authors present custom annotation within ENCODE for cancer, highlighting a workflow that can help prioritise key elements in oncogenesis.
Externí odkaz:
https://doaj.org/article/d3ef1766b33842a5aa6bd3194efeba4e
Publikováno v:
BMC Bioinformatics, Vol 21, Iss 1, Pp 1-18 (2020)
Abstract Background Genome-wide ligation-based assays such as Hi-C provide us with an unprecedented opportunity to investigate the spatial organization of the genome. Results of a typical Hi-C experiment are often summarized in a chromosomal contact
Externí odkaz:
https://doaj.org/article/1ede4fddfa7b4e3b85ee668dccf49fd4
Autor:
Galip Gürkan Yardımcı, Hakan Ozadam, Michael E. G. Sauria, Oana Ursu, Koon-Kiu Yan, Tao Yang, Abhijit Chakraborty, Arya Kaul, Bryan R. Lajoie, Fan Song, Ye Zhan, Ferhat Ay, Mark Gerstein, Anshul Kundaje, Qunhua Li, James Taylor, Feng Yue, Job Dekker, William S. Noble
Publikováno v:
Genome Biology, Vol 20, Iss 1, Pp 1-19 (2019)
Abstract Background Hi-C is currently the most widely used assay to investigate the 3D organization of the genome and to study its role in gene regulation, DNA replication, and disease. However, Hi-C experiments are costly to perform and involve mult
Externí odkaz:
https://doaj.org/article/c5c3304bc21c457993be8f6384642f01
Publikováno v:
iScience, Vol 23, Iss 8, Pp 101354- (2020)
The immune system is a complex biological network composed of hierarchically organized genes, proteins, and cellular components that combat external pathogens and monitor the onset of internal disease. To meet and ultimately defeat these challenges,
Externí odkaz:
https://doaj.org/article/f3b46f4f141944398a2370a279e88dc6
Publikováno v:
PLoS Computational Biology, Vol 13, Iss 7, p e1005647 (2017)
Genome-wide proximity ligation based assays such as Hi-C have revealed that eukaryotic genomes are organized into structural units called topologically associating domains (TADs). From a visual examination of the chromosomal contact map, however, it
Externí odkaz:
https://doaj.org/article/084b3d649ca440c5aca5ba3f4bf22adc
Autor:
Daifeng Wang, Koon-Kiu Yan, Cristina Sisu, Chao Cheng, Joel Rozowsky, William Meyerson, Mark B Gerstein
Publikováno v:
PLoS Computational Biology, Vol 11, Iss 4, p e1004132 (2015)
The topology of the gene-regulatory network has been extensively analyzed. Now, given the large amount of available functional genomic data, it is possible to go beyond this and systematically study regulatory circuits in terms of logic elements. To
Externí odkaz:
https://doaj.org/article/8e2243200e4e4db7bebb367523bca624
Autor:
Kristina Talbert-Slagle, Katherine E Atkins, Koon-Kiu Yan, Ekta Khurana, Mark Gerstein, Elizabeth H Bradley, David Berg, Alison P Galvani, Jeffrey P Townsend
Publikováno v:
PLoS Pathogens, Vol 10, Iss 5, p e1004092 (2014)
Externí odkaz:
https://doaj.org/article/32ee681c5af84fe4b52da349ab587580
Autor:
Chao Cheng, Koon-Kiu Yan, Woochang Hwang, Jiang Qian, Nitin Bhardwaj, Joel Rozowsky, Zhi John Lu, Wei Niu, Pedro Alves, Masaomi Kato, Michael Snyder, Mark Gerstein
Publikováno v:
PLoS Computational Biology, Vol 7, Iss 11, p e1002190 (2011)
We present a network framework for analyzing multi-level regulation in higher eukaryotes based on systematic integration of various high-throughput datasets. The network, namely the integrated regulatory network, consists of three major types of regu
Externí odkaz:
https://doaj.org/article/29e6a05148ab40a48f768494a68c053c
Autor:
Koon-Kiu Yan, Mark Gerstein
Publikováno v:
PLoS ONE, Vol 6, Iss 5, p e19917 (2011)
The presence of web-based communities is a distinctive signature of Web 2.0. The web-based feature means that information propagation within each community is highly facilitated, promoting complex collective dynamics in view of information exchange.
Externí odkaz:
https://doaj.org/article/558a62096e394c6aa34ade6a7cc8d156