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Kun Huang

  • Professor, COPH-Division of Biostatistics
  • Adjunct Professor, SBS-Biomedical Informatics
  • Professor, Computer Science & Engineering
  • 1800 Cannon Drive
    340H Lincoln Tower
    Columbus, OH 43210
  • 614-366-4980

Honors

  • 2015

    Finalist for the Marco Ramoni Distinguished Paper. .

  • 2013

    IEEE SciVis Data Contest Winner. .

  • 2010

    The National Institute of Drug Addiction Travel Award. .

  • 2010

    Distinguished Paper Award, AMIA Summit of Translational Bioinformatics. .

  • 2010

    Teaching Excellence Award. .

  • 2007

    Nominated for Packard Foundation Fellowship. The Ohio State University.

  • 2004

    IEEE PAMI Society Travel Grant. .

  • 1998

    Best Teaching Assistant. .

  • 1996

    Distinguished Graduate Medal. .

  • 1995

    Outstanding Student Award in Science and Technology Areas. .

  • 1994

    Guanghua Scholarship. .

  • 1993

    Excellent Student Scholarship. .

  • 1991

    Awarded First Place in the 1st Chinese Mathematics Olympiad. .

Chapters

2009

  • Huang K, Mosaliganti L, Cooper L, Machiraju R. 2009. "Quantitative phenotyping using microscopic images." In Microsopic Image Analysis for Life Science Applications, edited by Rittscher J, Machiraju R, Wong STC, Norwood: Artech House Publishers.
  • Cooper L, Ruiz A, Ujaldon M, Huang K. 2009. "Scalable image registration and 3D reconstruction at microscopic resolution." In High Throughput Image Reconstruction and Analysis, edited by Ravishankar RA, Cecchi GA, 181 - 208. Norwood: Artech House Publishers.

2006

  • Ribeiro M, Kurç T, Pan T, Huang K, Çatalyürek U, Zhang X, Langella S, Hastings S, Oster S, Ferreira R, Saltz J. 2006. "Tools for efficient subsetting and pipelined processing of large scale, distributed biomedical image data." In Grid Computing: The New Frontier Of High Performance Computing, edited by Grandinetti L, Amsterdam: Elsevier Science.

2004

  • Huang K, Ma Y. 2004. "A survey on geometric vision." In Handbook on Robotics, edited by Kurfess TR, 22 - 1. Boca Ralon: CRC Press.

Journal Articles

2015

  • Huayang Liu, Xing Tang, Arunima Srivastava, Thierry Pécot, Piotr Daniel, Benjamin Hemmelgarn, Stephan Reyes, Nicholas Fackler, Amneet Bajwa, Raleigh Kladney, Christopher Koivisto, Zhong Chen, Qianben Wang, Kun Huang, Raghu Machiraju, M. Teresa Saenz-Robles, Paul Cantalupo, James Pipas, and Gustavo Leone, 2015, "Redeployment of Myc and E2f1-3 drives Rb deficient cell cycles." Nature Cell Biology 17, no. 8, 1036 - 1048.
  • Liu,Bin; Liu,Jikui; Wang,Guoqing; Huang,Kun; Li,Fan; Zheng,Yang; Luo,Youxi; Zhou,Fengfeng, 2015, "A novel electrocardiogram parameterization algorithm and its application in myocardial infarction detection.." Computers in biology and medicine 61, 178 - 184.
  • Ding H, Huang K, Machiraju R, 2015, "GRAPHIE: Graph based Histology Image Explorer." BMC Bioinformatics 16, no. S11, S10 -

2014

  • Ozer,Hatice,Gulcin; Usubalieva,Aisulu; Dorrance,Adrienne; Yilmaz,Ayse,Selen; Caligiuri,Michael; Marcucci,Guido; Huang,Kun, 2014, "Identification of medium-sized copy number alterations in whole-genome sequencing.." Cancer informatics 13, 105 - 111.
  • Albin,Aaron; Ji,Xiaonan; Borlawsky,Tara,B; Ye,Zhan; Lin,Simon; Payne,Philip,RO; Huang,Kun; Xiang,Yang, 2014, "Enabling online studies of conceptual relationships between medical terms: developing an efficient web platform.." JMIR medical informatics 2, no. 2, e23 -
  • Ding,Hao; Wang,Chao; Huang,Kun; Machiraju,Raghu, 2014, "iGPSe: A visual analytic system for integrative genomic based cancer patient stratification." BMC BIOINFORMATICS 15, 203 -
  • Liebner,David,A; Huang,Kun; Parvin,Jeffrey,D, 2014, "MMAD: microarray microdissection with analysis of differences is a computational tool for deconvoluting cell type-specific contributions from tissue samples." BIOINFORMATICS 30, no. 5, 682 - 689.
  • Wang,Chao; Machiraju,Raghu; Huang,Kun, 2014, "Breast cancer patient stratification using a molecular regularized consensus clustering method." METHODS 67, no. 3, 304 - 312.
  • Ren,Kaiyu; Lai,Albert,M; Mukhopadhyay,Aveek; Machiraju,Raghu; Huang,Kun; Xiang,Yang, 2014, "Effectively processing medical term queries on the UMLS Metathesaurus by layered dynamic programming." BMC Medical Genomics 7, no. S1, S11 -
  • Hu,Yiheng; Wang,Chao; Huang,Kun; Xia,Fen; Parvin,Jeffrey,D; Mondal,Neelima, 2014, "Regulation of 53BP1 Protein Stability by RNF8 and RNF168 Is Important for Efficient DNA Double-Strand Break Repair." PLOS ONE 9, no. 10, e110522 -
  • Gao,Peng; Postiglione,Maria,Pia; Krieger,Teresa,G; Hernandez,Luisirene; Wang,Chao; Han,Zhi; Streicher,Carmen; Papusheva,Ekaterina; Insolera,Ryan; Chugh,Kritika; Kodish,Oren; Huang,Kun; Simons,Benjamin,D; Luo,Liqun; Hippenmeyer,Simon; Shi,Song-Hai, 2014, "Deterministic Progenitor Behavior and Unitary Production of Neurons in the Neocortex." CELL 159, no. 4, 775 - 788.
  • Li,Qihang; Zachmann,Gabriel; Feng,David; Huang,Kun; Machiraju,Raghu, 2014, "2013 IEEE Scientific Visualization Contest Winner Observing Genomics and Phenotypical Patterns in the Developing Mouse Brain." IEEE COMPUTER GRAPHICS AND APPLICATIONS 34, no. 5, 88 - 97.
  • Xu,Hua-Tai; Han,Zhi; Gao,Peng; He,Shuijin; Li,Zhizhong; Shi,Wei; Kodish,Oren; Shao,Wei; Brown,Keith,N; Huang,Kun; Shi,Song-Hai, 2014, "Distinct Lineage-Dependent Structural and Functional Organization of the Hippocampus." CELL 157, no. 7, 1552 - 1564.
  • Moldovan,Leni; Anghelina,Mirela; Kantor,Taylor; Jones,Desiree; Ramadan,Enass; Xiang,Yang; Huang,Kun; Kolipaka,Arunark; Malarkey,William; Ghasemzadeh,Nima; Mohler,Peter,J; Quyyumi,Arshed; Moldovan,Nicanor,I, 2014, "A Module of Human Peripheral Blood Mononuclear Cell Transcriptional Network Containing Primitive and Differentiation Markers Is Related to Specific Cardiovascular Health Variables." PLOS ONE 9, no. 4, e95124 -
  • Kotian,Shweta; Banerjee,Tapahsama; Lockhart,Ainsley; Huang,Kun; Catalyurek,Umit,V; Parvin,Jeffrey,D, 2014, "NUSAP1 influences the DNA damage response by controlling BRCA1 protein levels." CANCER BIOLOGY & THERAPY 15, no. 5, 533 - 543.
  • DeIuliis,J; Mihai,G; Zhang,J; Taslim,C; Varghese,J,J; Maiseyeu,A; Huang,K; Rajagopalan,S, 2014, "Renin-sensitive microRNAs correlate with atherosclerosis plaque progression." JOURNAL OF HUMAN HYPERTENSION 28, no. 4, 251 - 258.
  • Yates,A; Webb,A; Sharpnack,M; Chamberlin,H; Huang,K; Machiraju,R, 2014, "Visualizing Multidimensional Data with Glyph SPLOMs." COMPUTER GRAPHICS FORUM 33, no. 3, 301 - 310.

2013

  • Wolock,Samuel,L; Yates,Andrew; Petrill,Stephen,A; Bohland,Jason,W; Blair,Clancy; Li,Ning; Machiraju,Raghu; Huang,Kun; Bartlett,Christopher,W, 2013, "Gene X smoking interactions on human brain gene expression: finding common mechanisms in adolescents and adults." JOURNAL OF CHILD PSYCHOLOGY AND PSYCHIATRY 54, no. 10, 1109 - 1119.
  • Wu,Yun; Kwak,Kwang,Joo; Agarwal,Kitty; Marras,Alexander; Wang,Chao; Mao,Yicheng; Huang,Xiaomeng; Ma,Junyu; Yu,Bo; Lee,Robert; Vachani,Anil; Marcucci,Guido; Byrd,John,C; Muthusamy,Natarajan; Otterson,Gregory; Huang,Kun; Castro,Carlos,E; Paulaitis,Michael; Nana-Sinkam,Serge,P; Lee,L,James, 2013, "Detection of Extracellular RNAs in Cancer and Viral Infection via Tethered Cationic Lipoplex Nanoparticles Containing Molecular Beacons." ANALYTICAL CHEMISTRY 85, no. 23, 11265 - 11274.
  • Kalluru,Vikram; Machiraju,Raghu; Huang,Kun, 2013, "Identify condition-specific gene co-expression networks.." International journal of computational biology and drug design 6, no. 1-2, 50 - 59.
  • Zhang,Jie; Ni,Shiwei; Xiang,Yang; Parvin,Jeffrey,D; Yang,Yufeng; Zhou,Yongjian; Huang,Kun, 2013, "Gene Co-expression analysis predicts genetic aberration loci associated with colon cancer metastasis.." International journal of computational biology and drug design 6, no. 1-2, 60 - 71.
  • Xiang,Yang; Zhang,Jie; Huang,Kun, 2013, "Mining the tissue-tissue gene co-expression network for tumor microenvironment study and biomarker prediction." BMC GENOMICS 14, S4 -
  • Zhang,Yi; Guan,Zhen; Reader,Brenda; Shawler,Todd; Mandrekar-Colucci,Shweta; Huang,Kun; Weil,Zachary; Bratasz,Anna; Wells,Jonathan; Powell,Nicole,D; Sheridan,John,F; Whitacre,Caroline,C; Rabchevsky,Alexander,G; Nash,Mark,S; Popovich,Phillip,G, 2013, "Autonomic Dysreflexia Causes Chronic Immune Suppression after Spinal Cord Injury." JOURNAL OF NEUROSCIENCE 33, no. 32, 12970 - 12981.
  • Wang,Junbai; Lan,Xun; Hsu,Pei-Yin; Hsu,Hang-Kai; Huang,Kun; Parvin,Jeffrey; Huang,Tim,HM; Jin,Victor,X, 2013, "Genome-wide analysis uncovers high frequency, strong differential chromosomal interactions and their associated epigenetic patterns in E2-mediated gene regulation." BMC GENOMICS 14, 70 -
  • Taggart,David,J; Camerlengo,Terry,L; Harrison,Jason,K; Sherrer,Shanen,M; Kshetry,Ajay,K; Taylor,John-Stephen; Huang,Kun; Suo,Zucai, 2013, "A high-throughput and quantitative method to assess the mutagenic potential of translesion DNA synthesis." NUCLEIC ACIDS RESEARCH 41, no. 8, e96 -
  • Hu J, Chen C, Huang K,Mitchell T, 2013, "A distribution pattern assisted method of transcription factor binding site discovery for both yeast and filamentous fungi." Advances in Bioscience and Biotechnology 4, no. 4, 509 - 517.
  • Webb,Amy; Papp,Audrey,C; Sanford,Jonathan,C; Huang,Kun; Parvin,Jeffrey,D; Sadee,Wolfgang, 2013, "Expression of mRNA transcripts encoding membrane transporters detected with whole transcriptome sequencing of human brain and liver." PHARMACOGENETICS AND GENOMICS 23, no. 5, 269 - 278.
  • Wang,Chao; Pecot,Thierry; Zynger,Debra,L; Machiraju,Raghu; Shapiro,Charles,L; Huang,Kun, 2013, "Identifying survival associated morphological features of triple negative breast cancer using multiple datasets." JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION 20, no. 4, 680 - 687.

2012

  • Xiang Y, Zhang CQ, Huang K, 2012, "Predicting glioblastoma prognosis networks using weighted gene co-expression network analysis on TCGA data." BMC Bioinformatics no. Special Issue of Great Lake Bioinformatics Conference,
  • Taslim,Cenny; Chen,Zhong; Huang,Kun; Huang,Tim,Hui-Ming; Wang,Qianben; Lin,Shili, 2012, "Integrated analysis identifies a class of androgen-responsive genes regulated by short combinatorial long-range mechanism facilitated by CTCF." NUCLEIC ACIDS RESEARCH 40, no. 11, 4754 - 4764.
  • Xu,Ronald,X; Allen,David,W; Huang,Jiwei; Gnyawali,Surya; Melvin,James; Elgharably,Haytham; Gordillo,Gayle; Huang,Kun; Bergdall,Valerie; Litorja,Maritoni; Rice,Joseph,P; Hwang,Jeeseong; Sen,Chandan,K, 2012, "Developing digital tissue phantoms for hyperspectral imaging of ischemic wounds." BIOMEDICAL OPTICS EXPRESS 3, no. 6, 1433 - 1445.
  • Han Z, Lu T, Pecot T, Huang T, Machiraju R, Huang K, 2012, "A signal processing approach for enriched region detection in RNA polymerase II ChIP-seq data." BMC Bioinformatics no. Special Issue on Great Lake Bioinformatics Conference,
  • Ouseph,Madhu,M; Li,Jing; Chen,Hui-Zi; Pecot,Thierry; Wenzel,Pamela; Thompson,John,C; Comstock,Grant; Chokshi,Veda; Byrne,Morgan; Forde,Braxton; Chong,Jean-Leon; Huang,Kun; Machiraju,Raghu; de Bruin,Alain; Leone,Gustavo, 2012, "Atypical E2F Repressors and Activators Coordinate Placental Development." DEVELOPMENTAL CELL 22, no. 4, 849 - 862.
  • Yu,Yong-Chun; He,Shuijin; Chen,She; Fu,Yinghui; Brown,Keith,N; Yao,Xing-Hua; Ma,Jian; Gao,Kate,P; Sosinsky,Gina,E; Huang,Kun; Shi,Song-Hai, 2012, "Preferential electrical coupling regulates neocortical lineage-dependent microcircuit assembly." NATURE 486, no. 7401, 113 - U139.
  • Xiang Y, Fuhry D, Kaya K, Jin R, Catalyurek U, Huang K, 2012, "Merging network patterns: a general framework to summarize biomedical network data." Network Modeling Analysis in Health Informatics and Bioinformatics 1, no. 3, 103 - 116.
  • Ozer,Hatice,Gulcin; Parvin,Jeffrey,D; Huang,Kun, 2012, "DFI: gene feature discovery in RNA-seq experiments from multiple sources." BMC GENOMICS 13, S11 -
  • Han,Zhi; Tian,Lu; Pecot,Thierry; Huang,Tim; Machiraju,Raghu; Huang,Kun, 2012, "A signal processing approach for enriched region detection in RNA polymerase II ChIP-seq data." BMC BIOINFORMATICS 13, S2 -
  • Yoon,Sung,Ok; Park,Dong,Ju; Ryu,Jae,Cheon; Ozer,Hatice,Gulcin; Tep,Chhavy; Shin,Yong,Jae; Lim,Tae,Hee; Pastorino,Lucia; Kunwar,Ajaya,J; Walton,James,C; Nagahara,Alan,H; Lu,Kun,Ping; Nelson,Randy,J; Tuszynski,Mark,H; Huang,Kun, 2012, "JNK3 Perpetuates Metabolic Stress Induced by A beta Peptides." NEURON 75, no. 5, 824 - 837.
  • Xiang,Yang; Zhang,Cun-Quan; Huang,Kun, 2012, "Predicting glioblastoma prognosis networks using weighted gene co-expression network analysis on TCGA data." BMC BIOINFORMATICS 13, S12 -
  • Liu,Hui-Wen; Zhang,Jie; Heine,George,F; Arora,Mansi; Ozer,Hatice,Gulcin; Onti-Srinivasan,Raghuram; Huang,Kun; Parvin,Jeffrey,D, 2012, "Chromatin modification by SUMO-1 stimulates the promoters of translation machinery genes." NUCLEIC ACIDS RESEARCH 40, no. 20, 10172 - 10186.
  • Zhang,Jie; Parvin,Jeffrey; Huang,Kun, 2012, "Redistribution of H3K4me2 on neural tissue specific genes during mouse brain development." BMC GENOMICS 13, S5 -
  • Arora,Mansi; Zhang,Jie; Heine,George,F; Ozer,Gulcin; Liu,Hui-Wen; Huang,Kun; Parvin,Jeffrey,D, 2012, "Promoters active in interphase are bookmarked during mitosis by ubiquitination." NUCLEIC ACIDS RESEARCH 40, no. 20, 10187 - 10202.
  • Zhang,Pengyue; Mourad,Raphael; Xiang,Yang; Huang,Kun; Huang,Tim; Nephew,Kenneth; Liu,Yunlong; Li,Lang, 2012, "A dynamic time order network for time-series gene expression data analysis." BMC SYSTEMS BIOLOGY 6, S9 -
  • Chen,Hui-Zi; Ouseph,Madhu,M; Li,Jing; Pecot,Thierry; Chokshi,Veda; Kent,Lindsey; Bae,Sooin; Byrne,Morgan; Duran,Camille; Comstock,Grant; Trikha,Prashant; Mair,Markus; Senapati,Shantibhusan; Martin,Chelsea,K; Gandhi,Sagar; Wilson,Nicholas; Liu,Bin; Huang,Yi-Wen; Thompson,John,C; Raman,Sundaresan; Singh,Shantanu; Leone,Marcelo; Machiraju,Raghu; Huang,Kun; Mo,Xiaokui; Fernandez,Soledad; Kalaszczynska,Ilona; Wolgemuth,Debra,J; Sicinski,Piotr; Huang,Tim; Jin,Victor; Leone,Gustavo, 2012, "Canonical and atypical E2Fs regulate the mammalian endocycle." NATURE CELL BIOLOGY 14, no. 11, 1192 - ?.
  • Xiang J, Payne PRO, Huang K, 2012, "Transactional database transformation and its application in prioritizing human disease genes." IEEE/ACM Transactions on Bioinformatics and Computational Biology 9, no. 1, 294 - 304.
  • Zhang,Jie; Lu,Kewei; Xiang,Yang; Islam,Muhtadi; Kotian,Shweta; Kais,Zeina; Lee,Cindy; Arora,Mansi; Liu,Hui-Wen; Parvin,Jeffrey,D; Huang,Kun, 2012, "Weighted Frequent Gene Co-expression Network Mining to Identify Genes Involved in Genome Stability." PLOS COMPUTATIONAL BIOLOGY 8, no. 8, e1002656 -
  • Taslim C, Huang K, Huang T, Lin S, 2012, "Analyzing ChIP-seq data: preprocessing, normalization, differential identification, and binding pattern characterization." Methods in Molecular Biology 802, 275 - 291.
  • Taslim,Cenny; Lin,Shili; Huang,Kun; Huang,Tim,Hui-Ming, 2012, "Integrative genome-wide chromatin signature analysis using finite mixture models." BMC GENOMICS 13, S3 -
  • Taccioli,C; Chen,H; Jiang,Y; Liu,X,P; Huang,K; Smalley,K,J; Farber,J,L; Croce,C,M; Fong,L,Y, 2012, "Dietary zinc deficiency fuels esophageal cancer development by inducing a distinct inflammatory signature." ONCOGENE 31, no. 42, 4550 - 4558.

2011

  • Li R, Ackerman WE 4th, Summerfield TL, Yu L, Gulati P, Zhang J, Huang K, Romero R, Kniss DA, 2011, "Inflammatory gene regulatory networks in amnion cells following cytokine stimulation: translational systems approach to modeling human parturition." PLoS One 6, no. 6, e20560 -
  • Kais Z, Barsky SH, Mathsyaraja H, Zha Alicia, Ransburgh D, He G, Pilarski R, Shapiro C, Huang K, Parvin J, 2011, "KIAA0101 interacts with BRCA1 and regulates centrosome number." Molecular Cancer Research 9, no. 8, 1091 - 1099.
  • Zhao Z, Sanfilippo A, Huang K, 2011, "Gene network and pathway generation and analysis." International Journal of Computational Biology and Drug Design 4, no. 1, 1 - 4.
  • Ozer,Hatice,Gulcin; Huang,Yi-Wen; Wu,Jiejun; Parvin,Jeffrey,D; Huang,Tim,Hui-Ming; Huang,Kun, 2011, "COMPARING MULTIPLE ChIP-SEQUENCING EXPERIMENTS." JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY 9, no. 2, 269 - 282.
  • Ozer HG, Huang, Y-W, Wu J, Parvin J, Huang T, Huang K, 2011, "Comparing multiple ChIP-sequencing experiments." Journal of Bioinformatics and Computational Biology 9, no. 2, 269 - 282.
  • Xiang Y, Lu K, James S, Bowlasky T, Huang K, Payne P, 2011, "K-neighborhood decentralization: a comprehensive solution to index the UMLS for large scale knowledge discovery." Journal of Biomedical Informatics 45, 323 - 336.
  • Brown KN, Chen S, Han Z, Lu C-H, Tan X, Ding L, Zhang X-J, Cruz AL, Saur D, Anderson SA, Huang K, Shi S-H, 2011, "Clonal production and organization of inhibitory interneurons in the neocortex." Science 334, no. 6055, 480 - 486.
  • Xu C, Schmitt JM, Akasaka T, Kubo T, Huang K, 2011, "Automatic detection of stent struts with thick neointimal growth in intravascular optical coherence tomography image sequences." Physics in Medicine and Biology 56, no. 20, 6666 - 6675.
  • Beyer S, Zhang X, Jimenez R, Lee M-L, Richardson A, Huang K, Jhiang S, 2011, "Microarray analysis of genes associated with cell surface NIS protein levels in breast cancer." BMC Research Notes 4, 397 -
  • Wan SG, Taccioli C, Jiang Y, Chen H, Smalley KJ, Huang K, Liu XP, Farber JL, Croce CM, Fong LY, 2011, "Zinc deficiency activates S100A8 inflammation in the absence of COX-2 and promotes murine oral-esophageal tumor progression." International Journal of Cancer 129, no. 2, 331 - 345.

2010

  • Zhang,Jie; Xiang,Yang; Ding,Liya; Keen-Circle,Kristin; Borlawsky,Tara,B; Ozer,Hatice,Gulcin; Jin,Ruoming; Payne,Philip; Huang,Kun, 2010, "Using gene co-expression network analysis to predict biomarkers for chronic lymphocytic leukemia." BMC BIOINFORMATICS 11, S5 -
  • Schwartzbaum J, Huang K, Lawler S, Ding B, Yu J., 2010, "Allergy and inflammatory transcriptome is predominantly negatively correlated with CD133 expression." Neuro-Oncology 12, no. 4, 320 - 327.
  • Payne PRO, Huang K, Keen-Circle K, Kundu A, Zhang J, Borlawsky T., 2010, "Multi-dimensional discovery of biomarker and phenotype." BMC Bioinformatics suppl:9, no. 11, S3 -
  • Guo Y, Yuan C, Tian F, Huang K, Weghorst C, Tsai M-D, Li J, 2010, "Contributions of conserved TPLH tetrapeptides to the conformational stability of ankyrin repeat proteins." Journal of Molecular Biology 1, no. 399, 168 - 181.
  • Zabuawala,Tahera; Taffany,David,A; Sharma,Sudarshana,M; Merchant,Anand; Adair,Brett; Srinivasan,Ruchika; Rosol,Thomas,J; Fernandez,Soledad; Huang,Kun; Leone,Gustavo; Ostrowski,Michael,C, 2010, "An Ets2-Driven Transcriptional Program in Tumor-Associated Macrophages Promotes Tumor Metastasis." CANCER RESEARCH 70, no. 4, 1323 - 1333.
  • Xu R, Huang K, Qin R, Huang J, Xu JS, Ding L, Gnyawali US, Gnyawali SC, Sen CK, 2010, Dual-mode imaging of cutaneous tissue oxygenation and tissue vascular thermal reactivity. Journal of Visual Experiments 46, 2095 -
  • Zabuawala T, Taffany D, Shama SM, Adair B, Rosol T, Leone K, Huang K, Ostrowski MC, 2010, "Ets2 acts in tumor associated macrophages to promote breast tumor metastasis to lung." Cancer Research
  • Zhang J, Xiang Y, Ding L, Keen-Circle K, Borlawsky T, Ozer HG, Jin R, Payne PRO, Huang K, 2010, "Using gene co-expression network analysis to predict biomarkers for chronic lymphocytic leukemia." BMC Bioinformatics suppl:9, no. 11, S5 -
  • Wang G, Wang Y, Shen C, Huang, Y-W, Huang K, Huang T, Nephew KP, Li L, Liu Y., 2010, "RNA polymerase II binding patterns reveal genomic regions involved in microRNA gene regulation." PLoS One 11, no. 5, e13798 -

2009

  • Janoos F, Mosaliganti K, Xu X, Machiraju R, Wong S, Huang K, 2009, "Robust 3D reconstruction and identification of dendritic spines from optical microscopy imaging." Medical Image Analysis 13, no. 1, 167 - 179.
  • Rybaczyk L, Circle K, Grants I, Cooke H, Needleman B, Wunderlich JE, Huang K, Christofi FL, 2009, "New bioinformatics approach to analyze gene expressions and signaling pathways reveals unique purine gene dysregulation profiles that distinguish between CD and UC." Inflammatory Bowel Diseases 15, no. 7, 971 - 984.
  • Janoos,Firdaus; Mosaliganti,Kishore; Xu,Xiaoyin; Machiraju,Raghu; Huang,Kun; Wong,Stephen,TC, 2009, "Robust 3D reconstruction and identification of dendritic spines from optical microscopy imaging." MEDICAL IMAGE ANALYSIS 13, no. 1, 167 - 179.
  • Cooper L, Sertel O, Kong J, Huang K, Gurcan M, 2009, "Feature-based registration of distinct stained histopathology images: an application for computerized follicular lymphoma prognosis." Computer Methods and Programs in Biomedicine 96, no. 3, 182 - 192.
  • Taslim C, Wu J, Yan P, Singer G, Parvin J, Huang T, Lin S, Huang K, 2009, "Comparative study on ChIP-seq data: normalization and binding pattern characterization." Bioinformatics 25, no. 18, 2334 - 2340.
  • Yu J, Ershler M, Yu L, Wei M, Hackanson B, Yokohama A, Mitsui T, Liu C, Mao C, Liu S, Liu Z, Liu C-G, Liu X, Huang K, Visser J, Guido M, Plass C, Belyavsky A, Caligiuri M, 2009, "TSC-22 contributes to hematopoietic stem cell proliferation and repopulation and is epigenetically silenced in large granular lymphocyte leukemia." Blood 113, no. 22, 5558 - 5567.
  • Mosaliganti K, Janoos F, Irfanoglu O, Ridgway R, Machiraju R, Huang K, Saltz J, Leone G, Ostrowski M, 2009, "Tensor classification of N-point correlation function features for histology tissue segmentation." Medical Image Analysis 13, no. 1, 156 - 166.
  • Ruiz A, Ujaldon M, Cooper L, Huang K, 2009, "Non-rigid registration for large sets of microscopic images on graphics processors." Journal of Signal Processing Systems 55, no. 1-3, 229 - 250.
  • Mosaliganti,Kishore; Janoos,Firdaus; Irfanoglu,Okan; Ridgway,Randall; Machiraju,Raghu; Huang,Kun; Saltz,Joel; Leone,Gustavo; Ostrowski,Michael, 2009, "Tensor classification of N-point correlation function features for histology tissue segmentation." MEDICAL IMAGE ANALYSIS 13, no. 1, 156 - 166.

2008

  • Mosaliganti K, Pan T, Ridgway R, Sharp R, Cooper L, Gulacy A, Sharma A, Irfanoglu O, Machiraju R, Kurc T, Wenzel P, de Bruin A, Leone G, Saltz JH, Huang K, 2008, "An imaging workflow for characterizing phenotypical change in terabyte sized mouse model datasets." Journal of Biomedical informatics 41, no. 6, 863 - 873.
  • Mosaliganti K, Sharp R, Machiraju R, Huang K, Leone G, 2008, "Geometry-driven visualization of microscopic structures in biology." Computer Graphics Forum, the International Journal of the Eurographics Association 27, no. 3, 871 - 878.
  • Mosaliganti K, Cooper L, Sharp R, Machiraju R, Leone G, Huang K, Saltz J, 2008, "Reconstruction of cellular biological structures from optical microscopy data." IEEE Transactions on Visualization and Computer Graphics 14, no. 4, 863 - 876.
  • Mosaliganti,Kishore; Machiraju,Raghu; Huang,Kun; Leone,Gustavo, 2008, "Geometry-driven visualization of microscopic structures in biology." COMPUTER GRAPHICS FORUM 27, no. 3, 871 - 878.
  • Mosaliganti,Kishore; Cooper,Lee; Sharp,Richard; Machiraju,Raghu; Leone,Gustavo; Huang,Kun; Saltz,Joel, 2008, "Reconstruction of cellular biological structures from optical microscopy data." IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS 14, no. 4, 863 - 876.
  • Rybaczyk L, Bashaw M, Pathak D, Huang K, 2008, "An Indicator of Cancer: Downregulation of Monoamine Oxidase-A in Multiple Organs and Species." BMC Genomics 9, no. 9, 134 -

2007

  • Sharp R, Ridgway R, Mosalignati K, Wenzel P, Pan T, de Bruin A, Machuraju R, Huang K, Leone G, Saltz J, 2007, "Volume rendering phenotype differences in mouse placenta microscopy data." Computing in Science & Engineering 9, no. 1, 38 - 47.
  • Mosaliganti K, Janoos F, Sharp R, Ridgway R, Machiraju R, Huang K, Wenzel P, deBruin A, Leone G, Saltz J, 2007, "Detection and visualization of surface-pockets to enable phenotyping studies." IEEE Transactions on Medical Imaging 26, no. 9, 1283 - 1290.
  • Wenzel P, Wu L, de Bruin A, Chong J, Chen W, Dureska G, Sites E, Pan T, Sharma A, Huang K, Ridgway R, Mosaliganti K, Sharp R, Machiraju R, Saltz JH, Yamamoto H, Cross J, Robinson M, Leone G, 2007, Rb Is Critical in a Mammalian Tissue Stem Cell Population. Genes & Development 21, no. 1, 85 - 97.

2006

  • Hong W, Wright J, Huang K, Ma Y, 2006, "A multi-scale hybrid linear model for glossy image representation." IEEE Transaction on Image Processing 15, no. 12, 3655 - 3671.

2005

  • Mosaliganti K, Pan T, Machiraju R, Huang K, Saltz J, 2005, ITK-based registration of large images from light microscopy: a biomedical application. The Insight Journal Paper ID 19 -
  • Huang K, Hong W, Ma Y, 2005, "Symmetry-based photo editing." Pattern Recognition 38, no. 6, 825 - 834.
  • Yang AY, Huang K, Hong W, Ma Y, 2005, "Symmetry-based 3-D reconstruction from perspective images." Computer Vision and Image Understanding (CVIU) 99, no. 2, 210 - 240.
  • Hastings S, Ribeiro M, Langella S, Oster S, Catalyurek U, Pan T, Huang K, Ferreira R, Saltz J, Kurc T, 2005, "XML database support for distributed execution of data-intensive scientific workflows." ACM SIGMOD Record 34, no. 3, 50 - 55.

2004

  • Ma Y, Huang K, Vidal R, Košecká J, Sastry S, 2004, "Rank conditions on the multiple-view matrix." International Journal of Computer Vision 59, no. 2, 115 - 137.
  • Hong W, Yang AY, Huang Y, Ma Y, 2004, "On symmetry and multiple-view geometry: structure, pose, and calibration from a single image." International Journal of Computer Vision 60, no. 3, 241 - 265.

Unknown

  • Meng N, Machiraju R, Huang K, "Identify Critical Genes in Development with Consistent H3K4me2 Patterns across Multiple Tissues." IEEE/ACM Translations on Computational Biology and Bioinformatics
  • Zhang J, Huang K, "Normalized lmQCM : an Algorithm for Detecting Weak Quasi-clique Modules in Weighted Graph with Application in Functional Gene Cluster Discovery in Cancer." Cancer Informatics

Presentations

  • "Generalized principal component analysis and its applications." 2005, Columbus,
  • "Microscopy imaging research in BMI." 2006, Beijing, CN|CHN
  • "Data Management and Sharing at OSU-IU CCSB Center." 2010, Presented at NCI CCSB PI Meeting, Bethesda, US|USA
  • "Challenges on Data Management and Sharing." 2010, Presented at NIDA Workshop on Informatics, Bethesda, US|USA
  • "Microscopic Imaging as a Phenotyping Tool." 2008, Kent,
  • "Data Management and Sharing OSU-IU Center for Cancer Systems Biology." 2011, Presented at NCI CCSB Data Sharing and Management Working Group Teleconference,
  • "A Workflow for Processing a Large Set of Microscopic Images." 2007, Columbus,
  • "Biology Primer." 2011, Presented at IEEE Symposium on Biological Data Visualization (BioVis), Providence, US|USA
  • "Robust generalized principal component analysis and its applications." 2004, Columbus,
  • "Registration and 3D reconstruction - work in progress." 2005, Columbus,
  • A systems biology approach to model breast tumor microenvironment. 2009, Presented at Systems Biology of Biological Processes and Diseases: Biological Problems and Statistical Solutions, Columbus, US|USA
  • "Haystack or Gold Mine? Challenges and Opportunities in Mining Biomedical Data." 2009, Presented at The 3rd International Workshop on Mining Multiple Information Sources in IEEE International Conference on Data Mining (ICDM), Miami, US|USA
  • "A Signal Processing Approach to ChIP-seq Data Analysis." 2011, Presented at Case Western Reserve University, Cleveland, US|USA
  • "Biomedical imaging research in BMI." 2004, Presented at Ohio Supercomputing Center Visualization Symposium, Columbus,
  • "Large scale microscopy image analysis." 2005, Columbus,
  • "A Comprehensive Workflow for Analyzing ChIP-seq Data.." 2008, Presented at Plant Genome Meeting, Columbus,
  • "Challenges in Analyzing High Throughput Biomedical Data." 2009, Morgantown, US|USA
  • "Quantitative Phenotyping Using Microscopy Imaging." 2011, Presented at Microsoft Research Asia, Beijing, CN|CHN
  • "Biomedical imaging research in BMI." 2005, Presented at BISTI Microscopy Imaging Workshop, Columbus, US|USA
  • "Analysis of Massive Parallel Sequencing Data." 2009, Presented at Ohio Collaborative Conference on Bioinformatics (OCCBIO), Cleveland, US|USA
  • "Systems Biology Session." 2009, Presented at ISIBM International Joint Conferences on Bioinformatics, Systems Biology and Intelligent Computing (IJCBS), Shanghai, US|USA
  • "Computational Challenges in Analyzing High-Throughput Biomedical Data." 2009, Fuzhou, CN|CHN
  • "Parallel computing strategies for sequence mapping of NGS data." 2009, Presented at Critical Assessment of Massive Data Analysis Conference (CAMDA 2009), Chicago, US|USA
  • "Comparative Analysis of ChIP-seq Data using Mixture Model." 2009, Presented at Critical Assessment of Massive Data Analysis Conference (CAMDA 2009), Chicago, US|USA
  • "Challenges and Opportunities in Mining Large Biomedical Data." 2010, Presented at Microsoft Research Asia, Beijing, CN|CHN
  • "Bioinformatics Data Analysis." 2010, Presented at Fuzhou University, Fuzhou, CN|CHN
  • "Cancer Biomarker Discovery Using Co-Expression Networks." 2011, Presented at Indiana Univeristy, Indianapolis, US|USA
  • "Microscopic Imaging as a Phenotyping Tool." 2008, Chicago,
  • "Predicting Cancer Biomarkers Using Gene Co-expression Network." 2010, Presented at Case Western Reserve University, Cleveland, US|USA
  • "Generalized principal component analysis and its applications." 2004, Baltimore, US|USA
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2012, Presented at University of Technology and Science of China, Hefei, CN|CHN
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2012, Presented at Chinese Academy of Science National Key Laboratory of Systems Biology, Shanghai, CN|CHN
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2012, Presented at Soochow University, Suzhou, CN|CHN
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2012, Presented at Chinese Academy of Science Shenzhen Institute of Advanced Technologies, Shenzhen, CN|CHN
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2012, Presented at Biomedical Informatics Research Institute, Shanghai, CN|CHN
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2012, Presented at Tongji University, Shanghai, CN|CHN
  • "Integrative Approaches for Cancer Gene and Biomarker Prediction." 2013, Presented at Peking University, Beijing, CN|CHN
  • "Integrative Genomics Approach for Cancer Patient Stratification (RIP)." 2014, Presented at NCI Center for Cancer Systems Biology Annual Meeting, Houston, US|USA
  • "Integrative Genomics Approach for Cancer Patient Stratification." 2014, Presented at Rutgers University, New Brunswick, US|USA
  • "Introduction to Bio(medical)-Informatics." 2014, Presented at Department of Pathology, the Ohio State University, Columbus, US|USA
  • "Estrogen Induced RNA Polymerase II Stalling in Breast Cancer Cell Line MCF7." 2014, Presented at 11th International Symposium on Bioinformatics Research and Applications (ISBRA), Zhangjiajie, CN|CHN
  • "Integrative Genomics Approach for Cancer Patient Stratification." 2014, Presented at ShanghaiTech University, Shanghai, CN|CHN
  • "Integrative Genomics Approach for Cancer Patient Stratification." 2014, Presented at College of Public Health, the Ohio State University, Columbus, US|USA
  • "Predictive Modeling for Pressure Ulcers from ICU Using EHR." 2015, Presented at AMIA Summit on Clinical Research Informatics, San Francisco, US|USA
  • "Effect of Sequencing Depth in RNA-seq." 2012, Presented at Great Lake Bioinformatics Conference (GLBIO), Ann Arbor, US|USA
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2013, Presented at University of North Carolina at Charlotte, Charlotte, US|USA
  • "Integrative Stratification of Breast Cancer Patients." 2013, Presented at Cold Spring Harbor Asia Meeting on Frontiers in Bioinformatics and Computational Biology, Suzhou, CN|CHN
  • "Translational Bioinformatics Approaches in Disease Gene and Biomarker Prediction." 2014, Presented at Harbin Engineering University, Harbin, CN|CHN
  • "3D Modeling of Tissue Microenvironment Using Microscopic Imaging." 2012, Presented at University of Georgia, Athens, US|USA
  • "Biomedicine in the BIG Data Era - Challenges and Opportunities." 2013, Presented at Northeastern Normal University, Changchun, CN|CHN
  • "Identify Critical Genes in Development with Consistent H3K4me2 Patterns across Multiple Tissues." 2014, Presented at 4th Translational Bioinformatics Conference, Tsingdao, CN|CHN
  • "Integrative Genomics Approach for Cancer Patient Stratification." 2015, Presented at George Washington University, Washington, US|USA
  • "Overview of NGS Projects in OSU Translational Bioinformatics Program." 2012, Presented at BGI, Shenzhen, CN|CHN
  • "3D Morphology Analysis of Tissue Microenvironment." 2012, Presented at Methodist Hosptial, Houston, US|USA
  • "3D Morphology Analysis of Cell Population in Tissue Microenvironment." 2012, Presented at Biomedical Engineering Society Annual Meeting, Atlanta, US|USA
  • "Modeling Tissue Microenvironment Using Microscopic Imaging." 2012, Presented at Soochow University, Suzhou, CN|CHN
  • "Update on Bioinformatics and Computational Biology Research." 2013, Presented at NCI Center for Cancer Systems Biology Annual Meeting, San Antonio, US|USA
  • "Visualization Based Network Inference Using Nonlinear and Boolean Relationships." 2013, Presented at 12th International Conference on Bioinformatics (InCoB2013), Taicang, CN|CHN
  • "Data Integration Approaches for Disease Biomarker Prediction." 2013, Presented at The 9th IEEE International Conference on e-Science, Beijing, CN|CHN
  • "High performance analytics and visualization of proteome and genomics data." 2015, Presented at NCI CPTAC Data Jamboree, Philadelphia, US|USA
  • "Integration of BIG Biomedical Data for Disease Biomarker Discovery and Precision Medicine." 2015, Presented at Dalian Medical University, Dalian, CN|CHN
  • "Integrative Genomics Approach for Cancer Patient Stratification." 2015, Presented at Fudan University, Shanghai, CN|CHN
  • "Signal Processing Approaches for Next Generation Sequencing Data Analysis." 2015, Presented at ShanghaiTech University, Shanghai, CN|CHN
  • "Informatics links between histological features and genetics in cancer." 2015, Presented at NCI ITCR Annual PI Meeting, San Diego, US|USA
  • "Integration of Histology Images with Genomics Data for Cancer Patient Stratification." 2015, Presented at Workshop on Frontiers in Bioinformatics and Brain Sciences, Xi'an, CN|CHN
  • "Translational Bioinformatics Approaches for Disease Biomarker Discovery." 2015, Presented at West Virginia University, Morgantown, US|USA
  • "Integration of Histology Images with Genomics Data for Cancer Patient Stratification." 2015, Presented at 5th International Conference on Translational Bioinformatics, Suzhou, CN|CHN
  • "Integration of Histology Images with Genomics Data for Cancer Patient Stratification." 2015, Presented at Symposium on Worldwide Chinese in Translational Bioinformatics, Harbin, CN|CHN

Papers in Proceedings

2015

  • Kaewprag P, Newton C, Vermillion B, Hyun S, Huang K, Machiraju R "Predictive Modeling for Pressure Ulcers from Intensive Care Unit Electronic Health Records." in AMIA Summit on Clinical Research Informatics. San Francisco, (3 2015). 12 -
  • Hatem, A, Kaya, K, Parvin, J, Huang, K, Catalyurek, U "MICA: MicroRNA Integration for Active Module Discovery." in ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB). Atlanta, (9 2015). 136 - 145.
  • Sharpnack M, Huang K "Detecting cancer pathway crosstalk with distance correlation." in AMIA Summit on Translational Bioinformatics. San Francisco, (3 2015). 6 -

2014

  • Wang Y, Ozer GH, Huang K, Agrawal G "Removing Sequential Bottlenecks in Analysis of Next-Generation Sequencing Data." in the IEEE International Parallel and Distributed Processing Symposium: Workshop on High Performance Computational Biology (HiCOMB). Phoenix, (5 2014). 508 - 517.

2013

  • Wang C, Machiraju R, Huang K "Cancer Patient Integrative Stratification via a Two-step Consensus Clustering of Molecular Expression and Clinical Attributes." in AMIA Summit on Translational Bioinformatics. San Francisco, (3 2013). 31 -

2012

  • Xiang Y, Fuhry D, Jin R, Zhao Y, Huang K "Visualizing clusters in parallel coordinates for visual knowledge discovery." in The 16th Pacific-Asia Conference on Knowledge Discovery and Data Mining. Berlin, (6 2012). 505 - 516.
  • Gnyawali,Surya,C; Elghrably,Haytham; Melvin,James; Huang,Kun; Bergdall,Valerie; Allen,David,W; Hwang,Jeeseong; Litorja,Maritoni; Shirley,Eric; Sen,Chandan,K; Xu,Ronald "Hyperspectral imaging of ischemic wounds." in Conference on Optical Diagnostics and Sensing XII - Toward Point-of-Care Diagnostics / 4th Meeting of the Design and Performance Validation of Phantoms Used in Conjunction with Optical Measurement of Tissues. BELLINGHAM, (1 2012). 822910 -
  • Pecot T, Singh S, Caserta E, Huang K, Machiraju R, Leone, G "Non-parametric cell nuclei segmentation based on tracking over depth from 3D fluorescence confocal images." in IEEE International Symposium on Biomedical Imaging. Barcelona, (5 2012). 170 - 173.
  • Xu RX, Melvin J, Huang J, Elgharably H, Gnyawali S, Huang K, Bergdall V, Allen D, Hwang J, Litorja M, Shirley E, Sen C "Hyperspectral imaging of ischemic wounds." in The SPIE Photonics West. San Francisco, (1 2012). 8229B - 47.
  • Wenke K, Cantemir C, Zhang J, Marsh C, Huang K "Identifying Common Genes and Networks in Multi-Organ Fibrosis." in AMIA Summit on Translational Bioinformatics. San Francisco, (3 2012). 106 - 115.
  • Camerlengo T, Ozer HG, Onti-Srinivasan R, Yan P, Huang T, Parvin J, Huang K "From sequencer to supercomputer: an automatic pipeline for managing and processing next generation sequencing data." in AMIA Summit on Translational Bioinformatics. San Francisco, (3 2012). 1 - 10.

2011

  • Ding L, Insolera R, Shi S, Huang K "Detecting cellular events in brain cortex using time-lapse microscopy." in The IEEE International Symposium on Biomedical Imaging (ISBI). Washington, DC, (4 2011). 1553 - 1556.
  • Zhang J, Ni S, Parvin J, Yang Y, Huang K "Predicting Parkinson’s disease related genes using frequent gene co-expression analysis." in IEEE International Conference on Bioinformatics and Biomedicine. Atlanta, (10 2011). 1042 - 1044.
  • Zhang J, Knobloch T, Parvin J, Weghorst C, Huang K "Identifying smoking associated gene co-expression networks related to oral cancer initiation." in IEEE International Bioinformatics and Biomedicine (BIBM). Atlanta, (10 2011). 1039 - 1041.
  • Singh S, Janoos F, Pecot T, Caserta E, Rittscher J, Leone G, Huang K, Machiraju R "Non-parametric Population Analysis of Cellular Phenotypes." in Proceedings of the 14th International Conference on Medical Image Computing and Computer Assisted Intervention. BERLIN, (10 2011). 343 - 351.
  • Cooper L, Saltz J, Catalyurek U, Huang K "Acceleration of two point correlation function calculation for pathology image segmentation." in IEEE Conference on Health Informatics, Imaging and Systems Biology. San Jose, (7 2011). 174 - 181.
  • Cooper L, Huang K, Ujaldon M "Parallel automatic registration of large scale microscopic images on multiprocessor CPUs and GPUs." in The 12th IEEE International Workshop on Parallel and Distributed Scientific and Engineering Computing (PDSEC). Anchorage, (5 2011). 1367 - 1376.
  • Taslim C, Lin S, Huang K "Chromatin signature analysis and prediction of genome-wide novel promoters using finite mixture model." in Proceedings of the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS). San Antonio, (12 2011). 13 - 16.

2010

  • Wu H-Y, Zhang J, Huang K. "Peak detection on ChIP-Seq data using wavelet transformation." in Workshop on Data Mining in Next Generation Sequencing Data in IEEE International Conference on Bioinformatics and Biomedicine (BIBM). Hong Kong, (12 2010). 555 - 560.
  • Cooper L, Saltz J, Machiraju R, Huang K "Two-point correlation functions: feature space manifolds and correlation updating." in Workshop on Mathematical Methods in Biomedical Image Analysis (MMBIA) in IEEE International Conference of Computer Vision and Pattern Recognition (CVPR). San Francisco, (6 2010). 79 - 86.
  • Uppalapati P, Yang X, Huang K "Predicting prognostic markers for glioma using gene co-expression network analysis." in Workshop of Gene Network and Pathway Generation and Analysis in ACM Bioinformatics and Computational Biology Conference. Niagara Falls, (8 2010). 546 - 551.
  • Hong H, Xiang Y, Jin R, Huang K "Block Interaction: A Generative Summarization Scheme for Frequent Patterns." in The ACM SIGKDD Useful Pattern Workshop (UP'10). Washington, (7 2010). 55 - 64.
  • Ozer H-G, Wu J, Huang Y-W, Parvin J, Huang T, Huang K "Comparing multiple protein binding profiles in ChIP-seq experiments." in Proceedings of the Computational Systems Bioinformatics (CSB). Palo Alto, (8 2010).

2009

  • Ozer,Hatice,Gulcin; Camerlengo,Terry; Huang,Tim; Huang,Kun "A new method for mapping short DNA sequencing reads by using quality scores." in 4th Annual Ohio Collaborative Conference on Bioinformatics. LOS ALAMITOS, (1 2009). 21 - 25.
  • Camerlengo T, Ozer HG, Zhang G, Joobeur T, Meulia T, Trgovcich J, Huang K "Computational challenges and solutions to the analysis of microRNAprofiles in virally-infected cells derived by massively parallel sequencing." in Proceedings of the Ohio Collaborative Conference on Bioinformatics (OCCBIO). LOS ALAMITOS, (6 2009). 32 - 36.
  • Parvin,Jeffrey,D; Kais,Zeina; Arora,Mansi; Kotian,Shweta; Zha,Alicia; Ransburgh,Derek; Bozdag,Doruk; Catalyurek,Umit; Huang,Kun "Identification of a breast cancer associated regulatory network." in 4th Annual Ohio Collaborative Conference on Bioinformatics. LOS ALAMITOS, (1 2009). 71 - 75.
  • Kong J, Boyer K, Dunham P, Saltz J, Huang K "A new model-based estimation of ellipses for object representation." in Proceedings of the IEEE Engineering in Medicine and Biology Society Conference (EMBC'09). NEW YORK, (9 2009). 3637 - 3640.
  • Ozer,Hatice,Gulcin; Bozdag,Doruk; Camerlengo,Terry; Wu,Jiejun; Huang,Yi-Wen; Hartley,Tim; Parvin,Jeffrey,D; Huang,Tim; Catalyurek,Umit,V; Huang,Kun "A comprehensive analysis workflow for genome-wide screening data from ChIP-sequencing experiments." in 1st International Conference on Bioinformatics and Computational Biology. BERLIN, (1 2009). 320 - 330.
  • Ruan,Ning; Jin,Ruoming; Lee,Victor,E; Huang,Kun "A sparsification approach for temporal graphical model decomposition." in 9th IEEE International Conference on Data Mining. NEW YORK, (1 2009). 447 - 456.
  • Kundu A, Ozer HG, Borlawsky T, Circle K, Huang K, Payne P "Clinical attribute network for chronic lymphocytic leukemia." in IEEE International Conference on Bioinformatics and Biomedicine (BIBMW 2009). LOS ALAMITOS, (1 2009). 279 - 282.
  • Zhangi,Jie; Huang,Kun; Xiang,Yang; Jin,Ruoming "Using frequent co-expression network to identify gene clusters for breast cancer prognosis." in International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing. LOS ALAMITOS, (1 2009). 428 - 434.
  • Camerlengo T, Ozer HG, Teng M, Perez F, Yan P, Li L, Parvin J, Huang T, Kurc T, Liu Y, Huang K "Enabling data analysis on high-throughput data in large data depository using web-based analysis platform – a case study on integrating QUEST with GenePattern in epigenetics research." in Proceedings of the IEEE International Conference on Bioinformatics & Biomedicine (BIBM). LOS ALAMITOS, (11 2009). 392 - 395.

2008

  • Mosaliganti,K; Machiraju,R; Huang,K "Geometry-driven visualization of microscopic structures in biology." in 5th IEEE International Symposium on Biomedical Imaging. NEW YORK, (4 2008). 828 - 831.

2007

  • Cooper,Lee; Liu,Jun; Huang,Kun "Spatial segmentation of temporal texture using mixture linear models." in 2nd International Workshop on Dynamical Vision held in Conjunction with the 9th European Conference on Computer Vision. BERLIN, (1 2007). 142 - 150.
  • Janoos,F; Irfanoglu,M,O; Mosaliganti,K; Machiraju,R; Huang,K; Wenzel,P; DEBRUIN,A; Leone,G "Multi-resolution image segmentation using the 2-point correlation functions." in 4th IEEE International Symposium on Biomedical Imaging. NEW YORK, (1 2007). 300 - 303.
  • Ruiz,Antonio; Ujaldon,Manuel; Andrades,Jose,Antonio; Becerra,Jose; Huang,Kun; Pan,Tony; Saltz,Joel "The GPU on biomedical image processing for color and phenotype analysis." in 7th IEEE International Conference on Bioinformatics and Bioengineering. NEW YORK, (1 2007). 1124 - 1128.
  • Cooper L, Naidu S, Leone G, Saltz J, Huang, K "Registering high resolution microscopic images with different histochemical stainings - a tool for mapping gene expression with cellular structures." in International Workshop on Microscopic Image Analysis with Applications in Biology (MIAAB’07). Newark, (9 2007). 12 -
  • Mosaliganti K, Chen J, Janoos F, Machiraju R, Xia W, Huang K "Automated quantification of colony growth in clonogenic assays." in International Workshop on Microscopic Image Analysis with Applications in Biology (MIAAB’07). Newark, (9 2007). 6 -

2006

  • Ridgway R, Irfanoglu O, Machiraju R, Huang K Image segmentation with tensor-based classification of N-point correlation functions. in Proceedings of the International Workshop on Microscopic Image Analysis with Applications in Biology (MIAAB) in MICCAI. Copenhagen, http://www.miaab.org/miaab-2006-papers/miaab-2006-20-ridgeway.pdf, (1 2006). 20 -
  • Sharp R, Ridgway R, Mosalignati K, Irfanoglu O, Wenzel P, Machiraju R, Pan T, de Bruin A, Machuraju R, Leone G, Huang K, Saltz J "Examining phenotype differences in mouse placenta with volume rendering and segmentation." in The IEEE/NLM Life Science Systems & Applications Workshop. Bethesda, (7 2006). 70 - 71.
  • Cooper L, Huang K, Sharma A, Mosaliganti K, Pan T "Registration vs reconstruction: building 3-D models from 2-D microscopy images." in Multiscale Biological Imaging, Data Mining and Informatics. Santa Barbara, (9 2006). 57 - 58.
  • Huang K, Cooper L, Sharma A, Pan T "Fast automatic registration algorithm for large microscopy images." in The IEEE/NLM Life Science Systems & Applications Workshop. Bethesda, (7 2006). 128 - 129.
  • Prescott,Jeffrey; Clary,Matthew; Wiet,Gregory; Pan,Tony; Huang,Kun "Automatic registration of large set of microscopic images using high-level features." in 3rd IEEE International Symposium on Biomedical Imaging. NEW YORK, (1 2006). 1284 - 1287.
  • Mosaliganti,Kishore; Pan,Tony; Sharp,Richard; Ridgway,Randall; Iyengar,Srivathsan; Gulacy,Alexandra; Wenzel,Pamela; de Bruin,Alain; Machiraju,Raghu; Huang,Kun; Leone,Gustavo; Saltz,Joel "Registration and 3D visualization of large microscopy images." in Medical Imaging 2006 Conference. BELLINGHAM, (1 2006). 61442V -
  • Mosaliganti K, Janoos F, Xu X, Machuraju R, Wong STC, Huang K "Temporal matching of dentritic spines in confocal microscopy images of neuronal tissue." in International Workshop on Microscopic Image Analysis with Applications in Biology (MIAAB) in MICCAI. Copenhagen, (10 2006). 22 -

2005

  • Catalyurek U, Hastings S, Huang K, Kumar VS, Kurc T, Langella S, Narayanan S, Oster S, Pan T, Rutt B, Zhang X, Saltz J "Supporting large scale medical and scientific datasets." in The International Conference ParCo 2005. Jülich, (1 2005). 3 - 14.
  • Hong,W; Wright,J; Huang,K; Ma,Y "A multi-scale hybrid linear model for lossy image representation." in 10th IEEE International Conference on Computer Vision (ICCV 2005). LOS ALAMITOS, (1 2005). 764 - 771.
  • Pan,Tony; Huang,Kun "Virtual mouse placenta: tissue layer segmentation." in 27th Annual International Conference of the IEEE-Engineering-in-Medicine-and-Biology-Society. NEW YORK, (1 2005). 3112 - 3116.

2004

  • Huang,K; Yang,A,Y; Ma,Y "Sparse representation of images with hybrid linear models." in International Conference on Image Processing (ICIP 2004). NEW YORK, (1 2004). 1281 - 1284.
  • Huang K, Ma Y "Robust GPCA algorithm with applications in video segmentation via hybrid system identification." in 16th International Symposium on Mathematical theory of Networks and Systems (MTNS2004). Leuven, (7 2004). 383 -
  • Huang,K; Wagner,A; Ma,Y "Identification of hybrid linear time-invariant systems via subspace embedding and segmentation (SES)." in 43rd IEEE Conference on Decision and Control. NEW YORK, (1 2004). 3227 - 3234.
  • Huang,K; Ma,Y; Vidal,R "Minimum effective dimension for mixtures of subspaces: a robust GPCA algorithm and its applications." in Conference on Computer Vision and Pattern Recognition. LOS ALAMITOS, (1 2004). 631 - 638.
  • Huang,K; Yang,A,Y; Hong,W; Ma,Y "Large-baseline matching and reconstruction from symmetry cells." in IEEE International Conference on Robotics and Automation. NEW YORK, (1 2004). 1418 - 1423.

2003

  • Brand M, Huang K A unifying theorem for spectral embedding and clustering. in 9th International Workshop on Artificial Intelligence and Statistics (AI & Statistics). Key West, http://research.microsoft.com/en-us/um/cambridge/events/aistats2003/proceedings/index.htm, (1 2003). 39 -
  • Yang,A,Y; Rao,S; Huang,K; Hong,W; Ma,Y "Geometric segmentation of perspective images based on symmetry groups." in 9th IEEE International Conference on Computer Vision. LOS ALAMITOS, (1 2003). 1251 - 1258.
  • Huang,K; Hong,W; Ma,Y "Symmetry-based photo editing." in 1st IEEE International Workshop on Higher-Level Knowledge in 3D Modeling and Motion Analysis (HLK 2003). LOS ALAMITOS, (1 2003). 21 - 28.

2002

  • Ma Y, Kosecka J, Huang K "Rank deficiency condition of the multiple view matric for mixed point and line features." in 5th Asian Conference on Computer Vision (ACCV'01). Melbourne, (1 2002). 107 -
  • Ma Y, Huang K, Yang Y "Classification of rank conditions for multiple views of dynamical scenes." in 6th European Conference on Computer Vision, Workshop on Vision and Modeling of Dynamic Scenes. Copenhagen, (6 2002). 1 -
  • Huang,K; Fossum,R; Ma,Y "Generalized rank conditions in multiple view geometry with applications to dynamical scenes." in 7th European Conference on Computer Vision (ECCV 2002). BERLIN, (1 2002). 201 - 216.

2000

  • Huang,K; Kumar,P,R "Hierachical and integrated algorithms: Comparison and applications in motion estimation and recognition." in 39th IEEE Conference on Decision and Control. NEW YORK, (12 2000). 674 - 679.