Koon-Kiu Yan
Koon-Kiu Yan
Bioinformatics Research Scientist, St Jude Children's Research Hospital
Verified email at stjude.org - Homepage
Title
Cited by
Cited by
Year
An integrated encyclopedia of DNA elements in the human genome
ENCODE Project Consortium
Nature 489 (7414), 57, 2012
116242012
Architecture of the human regulatory network derived from ENCODE data
MB Gerstein, A Kundaje, M Hariharan, SG Landt, KK Yan, C Cheng, ...
Nature 489 (7414), 91-100, 2012
13862012
A user's guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS biol 9 (4), e1001046, 2011
12172011
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project
MB Gerstein, ZJ Lu, EL Van Nostrand, C Cheng, BI Arshinoff, T Liu, ...
Science 330 (6012), 1775-1787, 2010
9462010
Ranking scientific publications using a model of network traffic
D Walker, H Xie, KK Yan, S Maslov
Journal of Statistical Mechanics: Theory and Experiment 2007 (06), P06010, 2007
2692007
Comparative analysis of the transcriptome across distant species
MB Gerstein, J Rozowsky, KK Yan, D Wang, C Cheng, JB Brown, ...
Nature 512 (7515), 445-448, 2014
2532014
Comparative analysis of regulatory information and circuits across distant species
AP Boyle, CL Araya, C Brdlik, P Cayting, C Cheng, Y Cheng, K Gardner, ...
Nature 512 (7515), 453-456, 2014
1792014
Understanding transcriptional regulation by integrative analysis of transcription factor binding data
C Cheng, R Alexander, R Min, J Leng, KY Yip, J Rozowsky, KK Yan, ...
Genome research 22 (9), 1658-1667, 2012
1682012
A statistical framework for modeling gene expression using chromatin features and application to modENCODE datasets
C Cheng, KK Yan, KY Yip, J Rozowsky, R Alexander, C Shou, M Gerstein
Genome biology 12 (2), 1-18, 2011
1302011
Improved reconstruction of in silico gene regulatory networks by integrating knockout and perturbation data
KY Yip, RP Alexander, KK Yan, M Gerstein
PloS one 5 (1), e8121, 2010
1302010
Construction and analysis of an integrated regulatory network derived from high-throughput sequencing data
C Cheng, KK Yan, W Hwang, J Qian, N Bhardwaj, J Rozowsky, ZJ Lu, ...
PLoS Comput Biol 7 (11), e1002190, 2011
1042011
Measuring the evolutionary rewiring of biological networks
C Shou, N Bhardwaj, HYK Lam, KK Yan, PM Kim, M Snyder, MB Gerstein
PLoS Comput Biol 7 (1), e1001050, 2011
1022011
Comparing genomes to computer operating systems in terms of the topology and evolution of their regulatory control networks
KK Yan, G Fang, N Bhardwaj, RP Alexander, M Gerstein
Proceedings of National Academy of Science 107 (20), 9186, 2010
932010
Analysis of diverse regulatory networks in a hierarchical context shows consistent tendencies for collaboration in the middle levels
N Bhardwaj, KK Yan, MB Gerstein
Proceedings of the National Academy of Sciences 107 (15), 6841-6846, 2010
792010
The spread of scientific information: insights from the web usage statistics in PLoS article-level metrics
KK Yan, M Gerstein
PLoS one 6 (5), e19917, 2011
762011
Upstream plasticity and downstream robustness in evolution of molecular networks
S Maslov, K Sneppen, KA Eriksen, KK Yan
BMC Evolutionary Biology 4 (1), 1-12, 2004
722004
The ModERN Resource: Genome-Wide Binding Profiles for Hundreds of Drosophila and Caenorhabditis elegans Transcription Factors
MM Kudron, A Victorsen, L Gevirtzman, LDW Hillier, WW Fisher, ...
Genetics 208 (3), 937-949, 2018
642018
Measuring the reproducibility and quality of Hi-C data
GG Yardımcı, H Ozadam, MEG Sauria, O Ursu, KK Yan, T Yang, ...
Genome biology 20 (1), 1-19, 2019
562019
Measuring the reproducibility and quality of Hi-C data
GG Yardımcı, H Ozadam, MEG Sauria, O Ursu, KK Yan, T Yang, ...
Genome biology 20 (1), 1-19, 2019
562019
HiC-spector: a matrix library for spectral and reproducibility analysis of Hi-C contact maps
MG Koon-Kiu Yan, Galip Gürkan Yardımcı, Chengfei Yan, William S. Noble
Bioinformatics, 2017
482017
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Articles 1–20