Hyungwon Choi

发表

Using ProHits to Store, Annotate, and Analyze Affinity Purification–Mass Spectrometry (AP‐MS) Data

Guomin Liu, Jianping Zhang, Hyungwon Choi, 2012, Current protocols in bioinformatics.

MetTailor: dynamic block summary and intensity normalization for robust analysis of mass spectrometry data in metabolomics

Hyungwon Choi, Gengbo Chen, Liang Cui, 2015, Bioinform..

SAINT: Probabilistic Scoring of Affinity Purification - Mass Spectrometry Data

Hyungwon Choi, Brett Larsen, Mike Tyers, 2010, Nature Methods.

ProHits-viz: a suite of web tools for visualizing interaction proteomics data

Hyungwon Choi, Alexey I Nesvizhskii, Brian Raught, 2017, Nature Methods.

SAINTq: Scoring protein‐protein interactions in affinity purification – mass spectrometry experiments with fragment or peptide intensity data

Hyungwon Choi, Anne-Claude Gingras, Jean-Philippe Lambert, 2016, Proteomics.

When One and One Gives More than Two: Challenges and Opportunities of Integrative Omics

Hyungwon Choi, Norman Pavelka, Hyungwon Choi, 2011, Front. Gene..

LuciPHOr2: site localization of generic post-translational modifications from tandem mass spectrometry data

Hyungwon Choi, Alexey I. Nesvizhskii, Damian Fermin, 2015, Bioinform..

Analyzing Protein‐Protein Interactions from Affinity Purification‐Mass Spectrometry Data with SAINT

Guomin Liu, Hyungwon Choi, Alexey I Nesvizhskii, 2012, Current protocols in bioinformatics.

iOmicsPASS: network-based integration of multiomics data for predictive subnetwork discovery

Hyungwon Choi, Damian Fermin, Kwok Pui Choi, 2019, npj Systems Biology and Applications.

A Web Resource for Improved Analysis of AP-MS Protein Interaction Data.

Tony Pawson, Hyungwon Choi, Jean-Philippe Lambert, 2013 .

SLIDE – a web-based tool for interactive visualization of large-scale – omics data

Hyungwon Choi, Soumita Ghosh, Abhik Datta, 2018, Bioinform..

Deep convolutional neural network inspired by development of visual acuity in infants

Jun-Cheol Park, Dae-Shik Kim, Hyungwon Choi, 2015 .

multiSLIDE: a query-driven heatmap visualization tool for multi-omics data

Hyungwon Choi, Abhik Datta, Soumita Ghosh, 2019 .

Model-Based Analysis of Quantitative Proteomics Data with Data Independent Acquisition Mass Spectrometry

Hyungwon Choi, Guo Ci Teo, Gengbo Chen, 2017 .

A Least Squares Method for Detecting Multiple Change Points in a Univariate Time Series

Hyungwon Choi, Johan Lim, Kyu S. Hahn, 2018 .

A web‐tool for visualizing quantitative protein–protein interaction data

Guomin Liu, Hyungwon Choi, Anne-Claude Gingras, 2015, Proteomics.

Emotion reading with eye tracker

Dae-Shik Kim, Hyungwon Choi, Sun Mi Park, 2015 .

A Double-Layered Mixture Model for the Joint Analysis of DNA Copy Number and Gene Expression Data

Hyungwon Choi, Debashis Ghosh, Zhaohui S. Qin, 2010, J. Comput. Biol..

Applications of projection based interactive user interface

Jun-Cheol Park, Dae-Shik Kim, Hyungwon Choi, 2013, SA '13.

Variational auto-encoder with convolutional neural network for complex image classification task

Dae-Shik Kim, Jun-Cheol Park, Hyungwon Choi, 2015 .

SAINTexpress: improvements and additional features in Significance Analysis of INTeractome software.

Guomin Liu, Hyungwon Choi, Alexey I Nesvizhskii, 2014, Journal of proteomics.

Hyungwon Choi, Debashis Ghosh, Alexey I. Nesvizhskii, 2013, Bioinform..

DLMM software page

Hyungwon Choi, Debashis Ghosh, D. Ghosh, 2010 .

mapDIA: Preprocessing and statistical analysis of quantitative proteomics data from data independent acquisition mass spectrometry.

Hyungwon Choi, Alexey I Nesvizhskii, Anne-Claude Gingras, 2015, Journal of proteomics.

PTMscape: an open source tool to predict generic post-translational modifications and map hotspots of modification crosstalk

Hyungwon Choi, Christine Vogel, Ginny Xiaohe Li, 2018, bioRxiv.

EBprot: Statistical analysis of labeling‐based quantitative proteomics data

Hyungwon Choi, Damian Fermin, Hiromi W L Koh, 2015, Proteomics.

Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data

Hyungwon Choi, Debashis Ghosh, Alexey I. Nesvizhskii, 2009, Bioinform..

PTMscape: an open source tool to predict generic post-translational modifications and map modification crosstalk in protein domains and biological processes† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c8mo00027a

Hyungwon Choi, Christine Vogel, Ginny X. H. Li, 2018, Molecular omics.

Multiple Kernel Learning with Hierarchical Feature Representations

Jae Hyun Lim, Dae-Shik Kim, Hyungwon Choi, 2013, ICONIP.

Exploiting Interdata Relationships in Next-generation Proteomics Analysis*

Hyungwon Choi, Christine Vogel, Shuvadeep Maity, 2019, Molecular & Cellular Proteomics.

Incremental learning of deep neural networks mitigating catastrophic forgetting

Jun-Cheol Park, Dae-Shik Kim, Hyungwon Choi, 2015 .

Moving beyond P values: Everyday data analysis with estimation plots

Hyungwon Choi, Adam Claridge-Chang, Joses Ho, 2018, bioRxiv.

A mass-action-based model for gene expression regulation in dynamic systems

Hyungwon Choi, Debashis Ghosh, Christine Vogel, 2015 .

Learning an internal representation of a deep convolutional neural network model for pose-based human action recognition

Jun-Cheol Park, Changmo Nam, Dae-Shik Kim, 2015 .

iOmicsPASS: a novel method for integration of multi-omics data over biological networks and discovery of predictive subnetworks

Hyungwon Choi, Damian Fermin, Kwok Pui Choi, 2018, bioRxiv.

multiSLIDE: a web server for exploring connected elements of biological pathways in multi-omics data

Hyungwon Choi, Soumita Ghosh, Abhik Datta, 2019, bioRxiv.

A Latent Variable Approach for Meta-Analysis of Gene Expression Data from Multiple Microarray Experiments

Hyungwon Choi, Debashis Ghosh, Ronglai Shen, 2007, BMC Bioinformatics.

PECAplus: statistical analysis of time-dependent regulatory changes in dynamic single-omics and dual-omics experiments

Hyungwon Choi, Christine Vogel, Guoshou Teo, 2017, npj Systems Biology and Applications.

QPROT: Statistical method for testing differential expression using protein-level intensity data in label-free quantitative proteomics.

Hyungwon Choi, Alexey I Nesvizhskii, Damian Fermin, 2015, Journal of proteomics.

Exploiting hierarchical structure of classes in object classification using deep convolutional neural networks = 클래스들의 계층적 구조를 활용한 깊은 콘볼루션 신경망 모델 기반 물체 분류

Hyungwon Choi, 최형원, 2015 .

Adiabatic Persistent Contrastive Divergence learning

Jinwoo Shin, Yung Yi, Hyungwon Choi, 2017, 2017 IEEE International Symposium on Information Theory (ISIT).

Computationally Tractable Multivariate HMM in Genome-Wide Mapping Studies.

Hyungwon Choi, Debashis Ghosh, Zhaohui Qin, 2017, Methods in molecular biology.

Adaptive discriminant function analysis and reranking of MS/MS database search results for improved peptide identification in shotgun proteomics.

Hyungwon Choi, Alexey I Nesvizhskii, Ying Ding, 2008, Journal of proteome research.

Moving beyond P values: data analysis with estimation graphics

Hyungwon Choi, Joses Ho, Tayfun Tumkaya, 2019, Nature Methods.

The 2016 iPRG Study: Inferring Proteoforms From Bottom-up Proteomics Data

Hyungwon Choi, Magnus Palmblad, Henry H N Lam, 2016 .

Micro-RNAs in regenerating lungs: an integrative systems biology analysis of murine influenza pneumonia

Hyungwon Choi, Volker Patzel, Lu Yin, 2014, BMC Genomics.

LuciPHOr: Algorithm for Phosphorylation Site Localization with False Localization Rate Estimation Using Modified Target-Decoy Approach*

Hyungwon Choi, Alexey I Nesvizhskii, Anne-Claude Gingras, 2013, Molecular & Cellular Proteomics.

Label‐free quantitative proteomics and SAINT analysis enable interactome mapping for the human Ser/Thr protein phosphatase 5

Hyungwon Choi, Alexey I Nesvizhskii, Anne-Claude Gingras, 2011, Proteomics.

Modularity and hormone sensitivity of the Drosophila melanogaster insulin receptor/target of rapamycin interaction proteome

Hyungwon Choi, Alexey I Nesvizhskii, Ruedi Aebersold, 2011, Molecular systems biology.

Global Associations between Copy Number and Transcript mRNA Microarray Data: An Empirical Study

Hyungwon Choi, Debashis Ghosh, D. Ghosh, 2008, Cancer informatics.

LuciPHOr 2 : site localization of generic post-translational modifications from tandem mass spectrometry data

Hyungwon Choi, Alexey I. Nesvizhskii, Damian Fermin, 2015 .

CDK10 Mutations in Humans and Mice Cause Severe Growth Retardation, Spine Malformations, and Developmental Delays.

Hyungwon Choi, Paul Roschger, Klaus Klaushofer, 2017, American journal of human genetics.

Protein Interaction Network of the Mammalian Hippo Pathway Reveals Mechanisms of Kinase-Phosphatase Interactions

Tony Pawson, Hyungwon Choi, Anne-Claude Gingras, 2013, Science Signaling.

A Quantitative Chaperone Interaction Network Reveals the Architecture of Cellular Protein Homeostasis Pathways

Bonnie Berger, Hyungwon Choi, Brett Larsen, 2014, Cell.

PECA: a novel statistical tool for deconvoluting time-dependent gene expression regulation.

Hyungwon Choi, Debashis Ghosh, Christine Vogel, 2014, Journal of proteome research.

Significance Analysis of Spectral Count Data in Label-free Shotgun Proteomics*S

Hyungwon Choi, Alexey I Nesvizhskii, Damian Fermin, 2008, Molecular & Cellular Proteomics.