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), 57-74, 2012
89112012
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
12912012
A user's guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS biol 9 (4), e1001046, 2011
11672011
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
9062010
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
2592007
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
2302014
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
1692014
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
1672012
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
1272010
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
1222011
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
1002011
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
982011
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
922010
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
742010
Upstream plasticity and downstream robustness in evolution of molecular networks
S Maslov, K Sneppen, KA Eriksen, KK Yan
BMC Evolutionary Biology 4 (1), 9, 2004
712004
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
702011
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
422018
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
352017
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
332019
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
332019
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Articles 1–20