Seungchan Kim

发表

Coefficient of determination in nonlinear signal processing

Edward R. Dougherty, Yidong Chen, Seungchan Kim, 2000, Signal Process..

Identification of combination gene sets for glioma classification.

E. Dougherty, J. Trent, K. Hess, 2002, Molecular cancer therapeutics.

Unsupervised morphological granulometric texture segmentation of digital mammograms

Nasser Kehtarnavaz, Edward R. Dougherty, Krishnamoorthy Sivakumar, 1999, J. Electronic Imaging.

Phase I study of the novel Cdc2/CDK1 and AKT inhibitor terameprocol in patients with advanced leukemias

James M. Bogenberger, J. Carpten, C. Beaudry, 2015, Investigational New Drugs.

Identification of extracellular miRNA in human cerebrospinal fluid by next-generation sequencing.

Waibhav Tembe, Susan Rhodes, Kendall Van Keuren-Jensen, 2013, RNA.

Phenotype Classification Using Moment Features of Single-Cell Data

E. Dougherty, M. Bittner, Seungchan Kim, 2018, Cancer informatics.

Identification of signature genes by microarray for acute myeloid leukemia without maturation and acute promyelocytic leukemia with t(15;17)(q22;q12)(PML/RARalpha).

E. Dougherty, I. Shmulevich, Wei Zhang, 2003, International journal of oncology.

Total Extracellular Small RNA Profiles from Plasma, Saliva, and Urine of Healthy Subjects

Rebecca A. Reiman, J. Rozowsky, R. Kitchen, 2017, Scientific Reports.

Multiscale, multimodal analysis of tumor heterogeneity in IDH1 mutant vs wild-type diffuse gliomas

Rebecca F. Halperin, Sean R. Dinn, Winnie S. Liang, 2019, PloS one.

Identification of distinct basal and luminal subtypes of muscle-invasive bladder cancer with different sensitivities to frontline chemotherapy.

K. Baggerly, B. Czerniak, E. Plimack, 2014, Cancer cell.

Static Magnetic Fields Inhibit Proliferation and Disperse Subcellular Localization of Gamma Complex Protein3 in Cultured C2C12 Myoblast Cells

Seungchan Kim, W. Im, 2010, Cell Biochemistry and Biophysics.

Microarray reveals differences in both tumors and vascular specific gene expression in de novo CD5+ and CD5- diffuse large B-cell lymphomas.

Ilya Shmulevich, Wei Zhang, Edward Suh, 2003, Cancer research.

Context-specific gene regulatory networks subdivide intrinsic subtypes of breast cancer

Michael A. Black, Sara Nasser, H. Cunliffe, 2010, DTMBIO '10.

Learning Context-Specific Gene Regulatory Networks via In-Silico Conditioning

E. Dougherty, M. Bittner, Seungchan Kim, 2007, 2007 IEEE International Workshop on Genomic Signal Processing and Statistics.

Granulometric Classiflers from Small Samples

E. Dougherty, J. Barrera, Seungchan Kim, 2002 .

Leveraging Spatial Variation in Tumor Purity for Improved Somatic Variant Calling of Archival Tumor Only Samples

Winnie S. Liang, S. Byron, R. Korn, 2019, Front. Oncol..

The application of magnets directs the orientation of neurite outgrowth in cultured human neuronal cells

Seungchan Kim, K. Chu, Soon-Tae Lee, 2008, Journal of Neuroscience Methods.

MicroRNA‐328 is associated with (non‐small) cell lung cancer (NSCLC) brain metastasis and mediates NSCLC migration

Aarati R. Ranade, T. Ryken, R. Korn, 2011, International journal of cancer.

Tumor cell phenotype and heterogeneity differences in IDH1 mutant vs wild-type gliomas

Rebecca F. Halperin, Sean R. Dinn, Winnie S. Liang, 2019, bioRxiv.

Calibrated Bagging Deep Learning for Image Semantic Segmentation: A Case Study on COVID-19 Chest X-ray Image

Xishuang Dong, Seungchan Kim, Xiangfang Li, 2022, ArXiv.

Learning contextual gene set interaction networks of cancer with condition specificity

Michael P. Verdicchio, M. Bittner, M. Berens, 2013, BMC Genomics.

A method to reduce ancestry related germline false positives in tumor only somatic variant calling

Rebecca F. Halperin, Winnie S. Liang, J. Carpten, 2017, BMC Medical Genomics.

Genomic Signal Processing

Jaakko Astola, Ioan Tabus, Edward R. Dougherty, 2003, IEEE Signal Processing Magazine.

Molecular Predictors of Outcome and Drug Response in Multiple Myeloma: An Interim Analysis of the Mmrf CoMMpass Study

Winnie S. Liang, J. Carpten, J. Fay, 2016 .

Joint learning of logic relationships for studying protein function using phylogenetic profiles and the rosetta stone method

Chitta Baral, Seungchan Kim, Tie Wang, 2006, IEEE Transactions on Signal Processing.

Context-specific gene regulatory networks subdivide intrinsic subtypes of breast cancer

Sara Nasser, Seungchan Kim, Michael A. Black, 2010, DTMBIO '10.

Genomic profiles of low-grade murine gliomas evolve during progression to glioblastoma

C. Miller, Seungchan Kim, J. Simon, 2017, Neuro-oncology.

AKT Pathway Genes Define 5 Prognostic Subgroups in Glioblastoma

G. Mills, M. Reiser, I. Smirnov, 2014, PloS one.

Initial Experience with Genomic Profiling of Heavily Pretreated Breast Cancers

Seungchan Kim, M. Markman, D. Gupta, 2014, Annals of Surgical Oncology.

DNA Methylation in Multiple Myeloma Is Weakly Associated with Gene Transcription

J. Carpten, R. Fonseca, Seungchan Kim, 2012, PloS one.

Probabilistic Boolean networks: a rule-based uncertainty model for gene regulatory networks

Edward R. Dougherty, Ilya Shmulevich, Seungchan Kim, 2002, Bioinform..

miRNA Expression Profiling in Migrating Glioblastoma Cells: Regulation of Cell Migration and Invasion by miR-23b via Targeting of Pyk2

Seungchan Kim, M. Berens, S. Nasser, 2012, PloS one.

Fuzzy C-means Clustering with Prior Biological Knowledge

Chitta Baral, Luis Tari, Seungchan Kim, 2022 .

Tumor cell phenotype and heterogeneity differences in IDH1 mutant vs wild-type gliomas

Sean R. Dinn, M. Prados, S. Nelson, 2019, bioRxiv.

Gene expression profile in multiple sclerosis patients and healthy controls: identifying pathways relevant to disease.

Javed Khan, Markus Ringnér, Michael L Bittner, 2003, Human molecular genetics.

Probing glioblastoma and its microenvironment using single-nucleus and single-cell sequencing

Xishuang Dong, Seungchan Kim, J. Eschbacher, 2019, bioRxiv.

Prediction of Pairwise Gene Interaction Using Threshold Logic

Sarma Vrudhula, Seungchan Kim, Tejaswi Gowda, 2009, Annals of the New York Academy of Sciences.

Learning contextual gene set interaction networks of cancer with condition specificity

Michael P. Verdicchio, M. Bittner, M. Berens, 2013, BMC Genomics.

Extracellular microRNAs in blood differentiate between ischaemic and haemorrhagic stroke subtypes

Seungchan Kim, M. Huentelman, R. Spetzler, 2020, Journal of extracellular vesicles.

Molecular dissection of hyperdiploid multiple myeloma by gene expression profiling.

Rafael Fonseca, J. Carpten, G. Mulligan, 2007, Cancer research.

Biomarkers associated with metastasis of lung cancer to brain predict patient survival

Seungchan Kim, Michael B. Gotway, Aarati R. Ranade, 2011, Int. J. Data Min. Bioinform..

Identifying MiRNA and Imaging Features Associated with Metastasis of Lung Cancer to the Brain

Sara Nasser, Seungchan Kim, Glen J. Weiss, 2009, 2009 IEEE International Conference on Bioinformatics and Biomedicine.

Joint analysis of matched tumor samples with varying tumor contents improves somatic variant calling in the absence of a germline sample

S. Byron, R. Korn, Seungchan Kim, 2018, bioRxiv.

Differential Response of Glioma Stem Cells to Arsenic Trioxide Therapy Is Regulated by MNK1 and mRNA Translation

C. James, Seungchan Kim, J. Raizer, 2017, Molecular Cancer Research.

Clustering Context-Specific Gene Regulatory Networks

Seungchan Kim, Archana Ramesh, Robert Trevino, 2010, Pacific Symposium on Biocomputing.

Transforming Big Data into Cancer-Relevant Insight: An Initial, Multi-Tier Approach to Assess Reproducibility and Relevance

Ken Chen, Chris Sander, Olivier Gevaert, 2016, Molecular Cancer Research.

Pathway Implications of Aberrant Global Methylation in Adrenocortical Cancer

K. Bussey, Seungchan Kim, G. Gooden, 2016, PloS one.

In-silico conditioning of microRNA to identify potential biomarkers from serum for pancreatic cancer

Sara Nasser, Seungchan Kim, Glen J. Weiss, 2009, 2009 IEEE International Workshop on Genomic Signal Processing and Statistics.

Modeling of Gene Regulatory Network Dynamics Using Threshold Logic

Sarma Vrudhula, Seungchan Kim, Tejaswi Gowda, 2009, Annals of the New York Academy of Sciences.

Threshold Logic Gene Regulatory Model - Prediction of Dorsal-ventral Patterning and Hardware-based Simulation of Drosophila

Sarma B. K. Vrudhula, Seungchan Kim, Tejaswi Gowda, 2008, BIODEVICES.

Threshold Logic Gene Regulatory Networks

T. Gowda, S. Leshner, S. Vrudhula, 2007, 2007 IEEE International Workshop on Genomic Signal Processing and Statistics.

Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma.

Benjamin J Raphael, Benjamin J. Raphael, Richard A. Moore, 2016, Cancer cell.

RNA sequencing of whole blood reveals early alterations in immune cells and gene expression in Parkinson’s disease

A. Toga, M. Cookson, S. Levy, 2021, Nature Aging.

Prospective Molecular Profiling of Canine Cancers Provides a Clinically Relevant Comparative Model for Evaluating Personalized Medicine (PMed) Trials

David Cherba, Christopher Kingsley, Christina Mazcko, 2014, PloS one.

Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma.

Benjamin J Raphael, Benjamin J. Raphael, Richard A. Moore, 2016, Cancer cell.

Differential Pathway Dependency Discovery Associated with Drug Response across Cancer Cell Lines

Stuart L. Schreiber, Seungchan Kim, Michael E. Berens, 2017, PSB.

Inference from Clustering with Application to Gene-Expression Microarrays

Roberto Marcondes Cesar Junior, Michael L. Bittner, Edward R. Dougherty, 2002, J. Comput. Biol..

Mining molecular contexts of cancer via in-silico conditioning.

Seungchan Kim, Ina Sen, Micheal Bittner, 2007, Computational systems bioinformatics. Computational Systems Bioinformatics Conference.

Quantization of Global Gene Expression Data

Marcel Brun, Seungchan Kim, Tae-Hoon Chung, 2006, 2006 5th International Conference on Machine Learning and Applications (ICMLA'06).

A nonlinear discrete dynamical model for transcriptional regulation: construction and properties.

Seungchan Kim, John Goutsias, J. Goutsias, 2004, Biophysical journal.

Stochastic Transcriptional Regulatory Systems with Time Delays: A Mean-Field Approximation

Seungchan Kim, John K. Goutsias, J. Goutsias, 2006, J. Comput. Biol..

Growing genetic regulatory networks from seed genes

Michael L. Bittner, Edward R. Dougherty, Ronaldo Fumio Hashimoto, 2004, Bioinform..

Strong Feature Sets from Small Samples

Michael L. Bittner, Edward R. Dougherty, Junior Barrera, 2002, J. Comput. Biol..

Template-based intervention in Boolean network models of biological systems

Michael P. Verdicchio, Seungchan Kim, Seungchan Kim, 2014, EURASIP J. Bioinform. Syst. Biol..

Granulocyte-colony stimulating factor attenuates striatal degeneration with activating survival pathways in 3-nitropropionic acid model of Huntington's disease

Seungchan Kim, K. Chu, Soon-Tae Lee, 2008, Brain Research.

An exosome-based transcriptomic signature for noninvasive, early detection of patients with pancreatic ductal adenocarcinoma: A multicenter cohort study.

Joon-Oh Park, S. Yamada, Y. Kodera, 2022, Gastroenterology.

Finding robust linear expression-based classifiers

Michael L. Bittner, Edward R. Dougherty, Junior Barrera, 2001, SPIE BiOS.

Planning interventions in biological networks

Daniel Bryce, Michael P. Verdicchio, Seungchan Kim, 2010, TIST.

Comparison of Gene Regulatory Networks via Steady-State Trajectories

Edward R. Dougherty, Marcel Brun, Seungchan Kim, 2007, EURASIP J. Bioinform. Syst. Biol..

Erratum: Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma (Cancer Cell (2016) 29(5) (723–736) (S153561081630160X) (10.1016/j.ccell.2016.04.002))

Benjamin J. Raphael, M. Meyerson, D. Wheeler, 2016 .

Calibrated bagging deep learning for image semantic segmentation: A case study on COVID-19 chest X-ray image

Xishuang Dong, Seungchan Kim, Xiangfang Li, 2022, PloS one.

Contextualization of Drug-Mediator Relations Using Public Knowledge-bases

Jeff Kiefer, Gil Speyer, Seungchan Kim, 2016 .

Adrenocortical carcinoma survival rates correlated to genomic copy number variants

Jeffrey M Trent, J. Trent, Seungchan Kim, 2008, Molecular Cancer Therapeutics.

Multiresolution Analysis for Optimal Binary Filters

Edward R. Dougherty, Junior Barrera, Marcel Brun, 2001, Journal of Mathematical Imaging and Vision.

CAN MARKOV CHAIN MODELS MIMIC BIOLOGICAL REGULATION

Edward R. Dougherty, Seungchan Kim, Huai Li, 2002 .

A method to reduce ancestry related germline false positives in tumor only somatic variant calling

J. Carpten, D. Craig, L. Newman, 2017, BMC Medical Genomics.

Multivariate measurement of gene expression relationships.

E. Dougherty, M. Bittner, P. Meltzer, 2000, Genomics.

An Algorithm to Learn Causal Relations Between Genes from Steady State Data: Simulation and Its Application to Melanoma Dataset

Chitta Baral, Seungchan Kim, Xin Zhang, 2005, AIME.

An Interactive Environment for Qualitative Biological Modeling

Pat Langley, Seungchan Kim, P. Langley, 2011 .

EDDY: a novel statistical gene set test method to detect differential genetic dependencies

Sungwon Jung, Seungchan Kim, Seungchan Kim, 2014, Nucleic acids research.

Interim Analysis of the MMRF CoMMpass Study: Comprehensive Characterization of Multiple Myeloma Patients at Diagnosis Reveals Distinct Molecular Subtypes and Clinical Outcomes

Winnie S. Liang, J. Carpten, J. Fay, 2015 .

Knowledge-Assisted Approach to Identify Pathways with Differential Dependencies

Seungchan Kim, Michael E. Berens, Jeff Kiefer, 2016, PSB.

Identifying Targets for intervention by Analyzing Basins of Attraction

Michael P. Verdicchio, Seungchan Kim, Seungchan Kim, 2011, Pacific Symposium on Biocomputing.

Fuzzy c-means clustering with prior biological knowledge

Chitta Baral, Seungchan Kim, L. Tari, 2009, J. Biomed. Informatics.

Corrected Small-sample Estimation of the Bayes Error

Edward R. Dougherty, Marcel Brun, Seungchan Kim, 2003, Bioinform..