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    2021-04:
    01 ̿ CovCopCan : An efficient tool to detect Copy Number Variation from amplicon sequencing data in inherited diseases and cancel 
    26 유경훈 ATAV - a comprehensive platform for population-scale genomic analyses 

    2021-03:
    04 ̿ Process of Register Sequence data in Public Repository 
    15 권호식 Propensity score analysis and R packages 

    2020-12:
    07 ̿ Triple Negative Breast Cancer TMB Analysis 

    2020-11:
    02 최선 Handling temporality of clinical events with application to Adverse Drug Event detection in Electronic Health Records: A scoping review 
    9 ̿ Result of BRCA2 CNV qPCR Validation 

    2020-09:
    14 최선 Basic operation of Flask 
    17 ̿ Triple Negative Breast Cancer Analysis 
    28 권호식 review : Oligonucleotide microarray 

    2020-08:
    10 ̿ NGS CheckMate : Validating sample identity in NGS studies 

    2020-07:
    06 ̿ Somatic Mutation Filtering Result with Korea1KG 
    20 권호식 Error and Trouble shooting In TVC and GATK 
    20 유경훈 Perturbation robustness analyses reveal parameters in variant interpretation pipelines 

    2020-06:
    08 유경훈 VEF: a variant filtering tool based on ensemble methods 
    08 권호식 Difference in clinical information according to candidate variants in HD-MTX Study 
    22 GVB score optimization to reduce neutral variant effects 

    2020-05:
    04 최선 Consideration on study subjects utilizing UKbiobank 
    11 Update in UK Biobank data table 
    18 Tables and figures of AAP data analysis results using the modified workflow 
    25 ̿ Uveal melanoma germline analysis  

    2020-04:
    06 Candidate variants list by differential cut-off in Asparaginase associated pancreatitis  
    13 ̿ GATK - Germline copy number variant discovery (CNVs) 
    27 권호식 Study of contrast agent to side effects from additional samples 

    2020-03:
    05 ̿ PRISM Drug Repurposing Resource 
    12 유경훈 Rare copy number variants in over 100,000 European ancestry subjects reveal multiple disease associations 
    19 권호식 Discussion for defining phenotypes from UKB 
    26 최선 Drug classification-ATC code, RXnorm 
    26 최선 Drug classification-ATC code, RXnorm 
    30 Ischemic heart disease group extraction from UK Biobank patients 

    2020-02:
    06 최선 Query design for emr study& 
    06 최선 Query design for emr study& 
    20 Helix UK Biobank browser 
    27 Study overview of post ERCP pancreatitis 

    2020-01:
    02 Therapeutic index measured on FDA approved drugs for population comparison 
    09 ̿ Docker Pusing for release and PyQT for GUI programming 
    09 ̿ Docker Pusing for release and PyQT for GUI programming 
    16 유승원 scientific data collection-multi-omics data sharing(from 2019.10) 
    23 유경훈 Identifying cross-disease components of genetic risk across hospital data in the UK Biobank 
    30 권호식 GeneHancer: genome-wide integration of enhancers and target genes in GeneCards 

    2019-12:
    05 유승원 Updates in TCGAbiolinks R package 
    12 권호식 MAC: identifying and correcting annotation for multi-nucleotide variations 
    19 최선 Imbalanced data processing 
    26 Review of clinical coding classification systems: Read, BNF, and dm d 

    2019-11:
    07 Variant-level comparison between in silico prediction scores and VAMP-seq scores 
    14 A coding variant in FTO related to thiopurine-induced leukopenia in East Asian 
    21 ̿ Visualization of Copy Number Variation 
    28 유경훈 A Genocentric Approach to Discovery of Mendelian Disorders 

    2019-10:
    10 유승원 ProteinPaint : Exploring genomic alteration in pediatric cancer using ProteinPaint 
    24 권호식 Impact of outdated gene annotation on Enrichment analysis 
    24 유경훈 Global Biobank Engine: enabling genotype-phenotype browsing for biobank summary statistics 
    31 최선 Device Surveillance-CDM 

    2019-09:
    05 The all of us research program 
    19 Analysis of genetic and clinical data in AML patients with prolonged neutropenia  
    26 ̿ GDC Tumor Only Variant Calling Pipeline with Uveal Melanoma 

    2019-08:
    01 유경훈 A robust benchmark for germline structural variant detection 
    08 권호식 Markers related with Iopromide from Literatures 

    2019-07:
    04 Mutagenesis-based protein structure determination  
    11 Candidate variants of regression analysis in AML patients with prolonged neutropenia 
    18 ̿ Caveats and pitfalls of ROC analysis in clinical microarray research 
    25 유승원 R package for BAM file read visualiztion : BBCAnalyzer 

    2019-06:
    13 유경훈 A benchmark study of scoring methods for non-coding mutations. 
    20 권호식 Review : Exome sequencing of 20,791 cases of type 2 diabetes and 24,440 controls 
    27 최선 rehab-CDM 

    2019-05:
    02 권호식 MTX Genomic markers from literatures 
    09 Whole-genome reference panel of 1781 Northeast Asians improves imputation accuracy of rare and low-frequency variants 
    16 The Medical Genome Reference Bank: a whole-genome data resource of 4000 healthy elderly individuals. Rationale and cohort design 
    23 ̿ Deep-coverage whole genome sequences and blood lipids among 16,324 individuals 
    30 유승원 Introduction of ontology analysis tool : GOnet 

    2019-04:
    12 ̿ Copy Number Variation Algorithm 
    18 유승원 miRNA Databases discussion 
    18 유승원 review of miRNA, lncRNA databases 
    18 유승원 review of miRNA, lncRNA databases 
    24 유경훈 VIVA (VIsualization of VAriants): A VCF file visualization tool 

    2019-03:
    14 권호식 Clinical data of HD-MTX samples  
    21 채정환 taxol study_tcga data 
    28 Difference of genetic architectures in men and women with depression 

    2019-02:
    12 유승원 discussion : strategies for identification of read errors during Ion Proton based sequencing file calling workflow 

    2019-01:
    02 권호식 discussion about HD-MTX analysis 
    08 채정환 . 
    15 Why do polygenic risk scores get so much hype?  
    22 WES analysis of AML samples according to neutropenia duration  
    29 ̿ Comparison of three variant callers(DeepVariant, GATK 4 and SpeedSeq) for WGS 

    2018-12:
    04 유승원 Questions about SKAT test 
    11 유경훈 FLASK micro web framework in python 
    11 FLASK micro web framework in python 
    18 유경훈 Rare variants in drug target genes contributing to complex diseases, phenome-wide 

    2018-11:
    06 채정환 variant study of taxol-ADR analysis 
    06 채정환 variant study of taxol-ADR analysis 
    13 Genome-wide meta-analysis of depression in 807,553 individuals identifies 102 independent variants with replication in a further 1,507,153 individuals 
    20 WES analysis of AML samples according to neutropenia duration  
    27 ̿ PEPTATAC : A robust ATAC-seq pipeline 

    2018-10:
    01 ̿ Accurate genotyping across variant classes and length using variant graphs 
    08 skin classification 
    16 유승원 discussion : workflow for 6MP analysis 
    23 유경훈 ClinPred: Prediction Tool to Identify Disease-Relevant Nonsynonymous Single-Nucleotide Variants 
    30 권호식 HGVS nomenclature 

    2018-09:
    04 권호식 KOVA : Korean Variant Archive 
    11 채정환 taxol-ADR data analysis(FDR/OR statistics) 
    18 Reviewing the clinical utility of polygenic risk score 

    2018-08:
    07 ̿ Preprocessing Pipelines of PacBio and Nanopore Sequencing Data 
    14 Basal like triple negative breast cancer is susceptible to drugs targeting cell cycle and histone acetylation. 
    14 Basal like triple negative breast cancer is susceptible to drugs targeting cell cycle and histone acetylation. 
    14 Basal like triple negative breast cancer is susceptible to drugs targeting cell cycle and histone acetylation. 
    14 Basal like triple negative breast cancer is susceptible to drugs targeting cell cycle and histone acetylation. 
    14 Basal like triple negative breast cancer is susceptible to drugs targeting cell cycle and histone acetylation. 
    21 유승원 Introduction to COXPRES db 
    28 유경훈 SEQSpark: A Complete Analysis Tool for Large-ScaleRare Variant Association Studies 

    2018-07:
    03 유승원 6MP analysis : questions, discussions 
    17 권호식 GDM Visualization using maftools 
    24 채정환 breast cancer patient SNV analysis 
    24 채정환 breast cancer patient SNV analysis 
    24 채정환 breast cancer patient SNV analysis 
    24 유경훈 The VAAST Variant Prioritizer (VVP) 
    31 Common Disease Is More Complex Than Implied by the Core Gene Omnigenic Model 

    2018-06:
    05 Potentially susceptible genes to major depressive disorder 
    12 WES analysis of AML samples according to neutropenia duration  
    19 ̿ Survival Analysis-Cox Proportional-Hazards of TNBC Analysis  
    26 Radiogenomics for TNBC: Relationship between Microarray profile and radiomics texture data 

    2018-05:
    01 WXS for leukemia busulfan-VOD 
    08 유승원 Work flow discussion 
    15 유경훈 Patients subgrouping by antidepressant prescription 
    29 채정환 review; Introduction to bioinformatics algorithms 

    2018-04:
    03 채정환 network analysis tools review(cytoscape) 
    10 Evaluation of drug scores in antidepressants 
    17 WES analysis of AML samples according to prolonged neutropenia duration 
    24 ̿ Ewing Sarcoma Diagnostic Analysis  

    2018-03:
    06 유승원 VarDrugPub : Deep learning of mutation-gene-drug relations from the literature 
    13 김민정 intra-individual correlation and inter individual correlation using ANCOVA 
    20 유경훈 KRGdb database overview 
    27 권호식 xCell : cell types enrichment analysis 

    2018-02:
    01  
    01 STRING NETWORK for Graph-CNN 
    08 Are preprints the future of biology? 
    14 Analysis of AML exome sequencing  
    22 ̿ Cochle araplasia trio family analysis 
    28 WEX for Hepatic VOD and Network propagation 

    2018-01:
    04 Data integration patient clinical information with medication history  
    11 TCGA Pan-Cancer analysis for alternative polyadenylation 
    18 ̿ CNV algorithm for KPCDx Panel  
    18 ̿ CNV algorithm for KPCDx Panel 
    18 ̿ CNV algorithm for KPCDx Panel 
    18 ̿ CNV algorithm for KPCDx Panel 
    25 ӿ The most studies genes of all time and of any time 

    2017-12:
    07 ̿ Comparing Gene Fusion Detection Algorithm with WGS 
    07 ̿ Comparing Gene Fusion Detection Algorithm with WGS 
    14 ӿ Project DRIVE: deep RNAi interrogation of viability effects in cancer 
    21 Inference of candidate Synthetic Cytotoxic Drug (Pyrimethamine, Paclitaxel) 
    28 The charactericstics of singleton variants in neuropsychiatric disorders 

    2017-11:
    02 ӿ Graphtyper: enables population-scale genotyping using pangenome graphs 
    09 Regularization Techniques to Detect Biomarker for Cytotoxic Anticancer Drugs 
    16 Comparing protein evolution based score with molecular function score in PPARG 
    23 Data integration patient sample information with medical record 
    30 Identification of molecular classifiers in thyroid neoplasm 

    2017-10:
    12 SATIE: a web tool to predict sequential treatments in cancer. 
    19 Prognostic power of RUD (relative usage of distal poly(A) sites)  
    26 ̿ Comparison of Adapter Trimmers for Illumina Miseq Data  

    2017-09:
    05 ӿ The Mutational Spectrum of MSI Events and MMR Genes in previous studies 
    14 miRNA analysis pipeline and report format 
    21 Trans-Omics for Precision Medicine (TOPMed) program and Bravo browser 
    26 The comparison the feature of groups in biological network  

    2017-08:
    01 Association of a genetic variant in TSHR with variant angina 
    08 PanDrugs: Identifying actionable molecular alterations and prioritize drugs 
    16 Identification of alternative splicing events associated with pathological phenotypes of papillary thyroid carcinoma (PTC) 
    22  
    29 ̿ CNV analysis of Cancer Panel 2_0 Data from Pathology Department 

    2017-07:
    05 ̿ Comparison Results of vcf Normalization 
    12 ӿ SAFE: Spatial Analysis of Functional Enrichment 
    18 SDL pairs validation from cancer cell line data 
    25 Asparaginase-associated pancreatitis in pediatric ALL patients 

    2017-06:
    07 Asparaginase-associated Pancreatitis in pediatric ALL patients  
    14 The analysis of continuous variables in ALL samples. 
    21 Changes in alternative polyadenylation analysis from standard RNA-seq 
    28 Repositories where researchers can download or upload genomic data  

    2017-05:
    03 ̿ Improved VCF Nomralization 
    10 ӿ PARP inhibitors: Synthetic lethality in the clinic 
    17 Classification and segmentation in convolutional neural network  
    31 Identifying personalized candidate genes using case-control score distribution dissimilarity 

    2017-04:
    05 The genome Aggregation Database (gnomAD) : An overview of data properties 
    12 a significant variant of NEU4 gene  
    19 Three datasets from gnomAD database and their statistics 
    26 Further analysis of alternative polyadenylation in TCGA THCA data 

    2017-03:
    01 Experimental validation and further analysis of alternative splicing and polyadenylation in response to Csnk2b deletion  
    08 Review of ePGA  
    15 ̿ Result : CNV Detection Algorithm for Cancer Samples 
    29 Classification and segmentation in convolutional neural network 

    2017-02:
    01 GeneScore calculation strategy 
    08 Translating phenotype into a functional gene-level score using Corriell samples Pharmacogenomic genotypes 
    15 Modification of workflow and statistical methods for AAP analysis 
    22 Preprocessing and QC results of 119 ALL WXSs.  

    2017-01:
    04 The Effect of MITF abundance on posttranscriptional regulation in skin melanoma 
    11 Review of variant annotation tools, genome browsers and biological network analysis tools 
    11 Review of Glints 
    18 ̿ Survival analysis of Loss of Heterozygosity in triple-negative breast cancer 
    25 ӿ SMC lung cancer data м 

    2016-12:
    07 Genetic Programming Based Gene Scoring Method for Common-Complex disease Prediction 
    14 Evaluating the intolerance of genic sub-regions    
    21 Patient Information on L-asparaginase associated Pancreatitis  
    28 Recommended Coverage and Read Depth for NGS Applications. 

    2016-11:
    02 Public genome databases: GnomDB, ExAC and ESP6500. 
    09 Overview of Analysis method and Database for genome-wide CLIP experiments 
    16 Variant damaging score algorithm list 
    23 ̿ Characters of Singletones in 1KGenome 
    30 ӿ Loss-of-function genetic tools for animal models: cross-species and cross-platform differences 

    2016-10:
    05 ӿ LUAD acs-mutation/expression analysis 
    15 Mutual exclusive network and inference target from drug sensitivity 
    19 Functional similarity of genes by CDS length 
    26 WXS to detect genes causing L-asparaginase induced pancreatitis 

    2016-09:
    05 CRAM format - An efficiently compressed BAM file 
    12 Analysis of splicing and polyadenylation in mouse model with MEK deletion  
    21 [REVIEW] Mutations and Drugs Portal(MDP) : A database linking drug response data and genomic information  
    28 ̿ Cancer Panel - Comparing 4 different callers on KRAS region 
    28 ̿ Cancer Panel - Comparing 4 different callers on KRAS region 
    28 ̿ Cancer Panel - Comparing 4 different callers on KRAS region 

    2016-08:
    01 ӿ Analysis colon cancer in ICGC data 
    08 ̿ KRAS Depth Status of Cancer Panel 
    08 ̿ KRAS Depth Status of Cancer Panel 
    15 Microarray analysis for stem cell differentication 
    22 Review of 5 clustering algorithms in weka 
    29 Drug-induced pathways based on CMAP  

    2016-07:
    04 Drug-induced pathways based on CMAP 
    15 The settings and parameters for sequencing data analysis. 
    18 Regulation of gene expression in cutaneous melanoma and its association with patient survival  
    25 Review of Human Phenotype Ontology 

    2016-06:
    06 ̿ Comparing ROC curve after change of alignment algorithm 
    06 ̿ Comparing ROC curve after change of alignment algorithm 
    13 ӿ Simple example for using Mutect2 
    20 Intratumor heterogeneity influences the interaction of neoplastic cells with ECM proteins 
    27 The relationship between four properties of genes and gene damage scores 

    2016-05:
    02 HAPGEN2 : simulation of multiple disease SNPs 
    09 The review of the human disease using network biology 
    16 Descriptive statistics of 397 Korean whole-genome sequencing data 
    23 rMATS update and the results 
    30 CDC frequently prescribed therapeutic drug classes  

    2016-04:
    04 [REVIEW]Public data and open source tools for multi-assay genomic investigation of disease 
    11 ̿ SCF- A Standard file format for data from DNA sequencing instruments 
    18 ӿ Lung cancer cell line data processing 
    25 Predicting metastasis related gene via intratumor heterogeneity of Lung cancer 

    2016-03:
    01 Genomic intra- and inter-tumor heterogeneity Softwares and post session research 
    07 Characteristics of three classic genome scale model building methods 
    14 NCI-DREAM drug sensitivity prediction challenge 
    21 Efficient approach for obtaining high-confident variant calls. 
    28 [REVIEW] Genetic variation and alternative splicing  

    2016-02:
    02 Review: BRAF vs RAS oncogenes in cancer  
    10 Integration of DrugBank and KEGG Drug 
    16 ̿ Review_Computational detection and suppression of sequence-specific off-target phenotypes from whole genome RNAi screens 
    23 ӿ Patterns and functional implications of rare gremlin variants across 12 cancer types 

    2016-01:
    05 SDCS results in accordance with z score threshold 
    12 Plan for calculating intratumor heterogeneity 
    19 The interactome of functional variants in 1KP - Gene Score 
    26 VVA modules : available tests and filters for genome data analysis 

    2015-12:
    01 The review of variant analysis tool, Sequence To Medical Phenotypes 
    08 ̿ Package for analysing cancer panel data 
    22 How to use MuTect, ExomeCNV and EXPANDS. 

    2015-11:
    03 Overexpression using normal expression in SDL analysis 
    13 Preprocessing and QC results of 27 BronJ WXSs. 

    2015-10:
    02 Loss-of-function variants in CACNA1A and ABI1 interacting proteins from a subject with pulmonary edema 
    09 An automated system for statistical test with variants found in Yutopar subjects 
    13 Microarray-calcification analysis in 182 breast cancer patients 
    20 Workflow of identifying deleterious mutaiton using filter-based method. 
    27 The correlation between function of genes and variants in 1KP 

    2015-09:
    04 ̿ Review: SpeedSeq - ultra fast personal genome analysis and interpretation 
    12 [Journal review] Informatics for RNA Sequencing 
    15 Relationships of variants through PPI in 1kp data 
    22 Summary of fluidigm results for 6-mercaptopurine related neutropenia cases from ALL 

    2015-08:
    07 The distribution of association with gene and disease according to PPI degree 
    15 ӿ The Human Phenotype Ontology (HPO)  
    21 Synthetic dosage lethality in LUAD 

    2015-07:
    11 Gene score distributions and mutation statistics for 33 WXS from Ion Proton  
    17 Data manipulations and method for gene selection in SDL 
    24 Comparison between curatedVCF and rawVCF of WXS data from Ion Proton 
    31 ̿ Kataegis and Rainfall plot for TCGA data 

    2015-06:
    05 Define a gene-set of Busulfan related genes for PharmSafe score 
    12 Gene score distributions for Busulfan, COPD, 6MP and Ritodrine subjects 
    19 A genome scale of manhattan plot with SIFT score annotation for Busulfan project. 
    26 ̿ Statistical reulst of TCGA protected vcf files 

    2015-05:
    01 Time series analysis of a patient with leukemia M7 
    08 ̿ WES Data Review for RAL study 
    15 ̿ Review of data for Refractory Acute Leukemia study 
    29 Define a set of Busulfan related genes affecting adverse drug reaction using PharmSafe scores 

    2015-04:
    04 ӿ Cox regression with Penalized likelihood  
    10 Summary statistics of Alzheimer sequencing data 
    17 Genetic Characterization of Clonal State in Eosinophilia Anemia Subjects  
    24 Pathway enrichment analysis using the Reactome Functional interaction module of Cytoscape 

    2015-03:
    05 Taking a snapshot of aligned reads and IGV batch job scripts 
    13 ӿ Predicting effects of indels 
    20 Confounding factor of clinical characteristics in the multivariate survival analysis 
    27 Workflow of WGS using GRCh38 reference 

    2015-02:
    06 Somatic mutations due to higher likelihood of misalignment and PCR artifacts 
    13 Data structure and mutation statistics in 1KP Phase3 
    17 Systematic errors in sequence and read level which affect SNV calls 

    2015-01:
    02 Quality check and alignment results of 9 subjects with Yutopar side effects 
    09 Multivariate survival analysis with Cox-proportional hazard ratio model  
    23 HHA data analysis : Internal Control Issues 
    30 Low allele fraction mutation detection with GATK joint calling method 

    2014-12:
    05 Error rate correction of multiple hypothesis test 
    12 The progress of comparison the feature of two groups in biological network 
    19 ӿ SKCM analysis result 
    26 Human papillomavirus and survival in Cancer 

    2014-11:
    07 The result from WGS data analysis mapped by GRCh38 
    14 Joint calling pipeline for somatic mutations & result stats 
    21 ӿ Variant scores(SIFT, Polphen2..) in CFTR2 database variants 
    28 Distribution characteristics of genes with rare and deleterious mutations in 1KP 

    2014-10:
    02 Sequencing data quality checklist and accuracy measurement 
    10 ӿ ICGC LUSC Data analysis 
    16 KEGG Pathway data download using rest API 
    23 Mutation landscape graph in the SqCCs 
    31 ̿ Analysis of noncoding regulatory mutation hotspot and its workflow 

    2014-09:
    03 HPV status Data in the TCGA - Squamous cell carcinoma 
    12 WXS analysis of 6-mercaptopurine related neutropenia cases from ALL 
    19 ӿ Syn-lethality: An Integrative Knowledge Base of Synthetic Lethality  
    26 Dys-regulation of the Wnt pathway in the SQCCs  

    2014-08:
    06 GMOD JBrowse Genome Browser Settings and Configuration 
    14 ӿ Overview of Gene Ontology and its application 
    20 Systematic meta-analyses of Alzheimer disease genetic association studies 

    2014-07:
    02 An analysis protocol for Ion Proton sequencing data at low level 
    09 Germline variants associated with lymph node metastasis in Thyroid papillary cancer 
    16 ӿ Condition and application of cox proportional hazard model 
    23 Reviews in LOVD (Leiden Open Variation Database) Software 
    30 Review-BioGrid :Database of protein and genetic interaction  

    2014-06:
    05 Whole-genome and whole-exome sequencing in neurological diseases 
    12 Off-target regions and their characteristics 
    19 Survival analysis and Validation of the Mutated Wnt pathway genes in the SQCCs 
    25 Result of KS test between subjects with and without risk allele 

    2014-05:
    01 Strategies and criteria for filtering highly variable regions in genome 
    08 ӿ Permutation test to compare survival curves and result 
    15 Application process for Public Genome Data through dbGAP 
    22 Damaging variants effect on gene expression  
    29 ӿ Identification of potential synthetic lethals gene using mutation and clinical data  

    2014-04:
    03 TCGA Protected Mutation Description 
    10 Proton Sequencing Data Preprocessing and Pipeline 
    17 Proton Sequencing Data Alignment Result with BWA 
    24 Proton Sequencing Data, Unmapped Region 

    2014-03:
    06 ӿ Identification of synthetic lethal genes in 12 major cancer types  
    13 Deleterious mutations and genetic models for discovering pathogenic mutations 
    20 Pipeline for Variant specific gene expression processing 
    27 Protected mutation sets and descriptions 

    2014-02:
    04 Mutational analysis in 12 Tumor type 
    11 ӿ Identification of synthetic lethal genes in 12 major cancer types  

    2014-01:
    07 MuSic and Dendrix for mutational analysis using in TCGA datas  
    14 Identify Inherited Rare-Risk Mutations for Hereditary Cancers 
    21 1000 Genomes Cluster Plot 
    21 Cancer genomics research topics and plans for 2014 

    2013-12:
    03 ӿ Workflow and result of survival analysis in TCGA, BRCA. 
    10 Web-based analysis system flowchart 
    17 Web-based Analysis System 
    24 A simple sentense for the research objective. 
    31 TCGA Mutational Landscape and Distribution Across 12 Tumors 
    31 ӿ mutation analysis of TCGA LUSC data 

    2013-11:
    05 TCGA VCF Data Parsing and Workflow 
    15 Gene score distribution depends on gene scoring methods 
    19 Big picture of Association study between genotype and gene score 
    26 ӿ Synthetic Lethality Analysis of BRCA 

    2013-10:
    08 Sorting Tolerant From Intolerant Algorithm and its scores 
    18 Screening of association between marker SNPs and gene score 
    22 The number of Ensembl gene IDs in SIFT DB and Ensembl DB 

    2013-09:
    03 ӿ Available public genomes for preprocessing: SIFT/PP2 Score 
    10 Distributed computing for variants annotation 
    17 ӿ TCGA germline data labeling 
    24 Geometric mean of SIFT scores per Gene and Exon in Normal population 

    2013-07:
    02 Overview of International Cancer Genome Consortium 
    09 Somatic mutation frequency for each cancer and gene in TCGA 
    16 Summary of Somatic mutations in COSMIC database 
    23 ӿ Characteristics of DNA methylation depending on cancer type(TCGA data) 
    30 Search Strategies in cBioPortal for Cancer Genomics 

    2013-06:
    04 Exploring Protected-TCGA Data and Localization Plan  
    11 TCGA Level 4 Data Structure and Usage 
    18 Characteristics of driver and passenger mutations 
    25 Algorithm for De Novo Driver Exclusivity (Dendrix) 

    2013-05:
    07 TCGA Data Assess Page: Downloadable Link and Specification 
    14 ӿ Resources for Cancer Genome: COSMIC 
    30 ӿ Patterns of Methylation Status and Somatic mutations in Cancer Genome 

    2013-04:
    02 ӿ TCGA Data Primer: Barcode and Patient ID 
    02 Somatic Muatation Data and its Structure 
    09 Summary of comprehensive analyses: Integrative analysis by TCGA 
    16 Server monitoring tool: CACTI 
    16 Coding for TCGA data 
    16 TCGA Data Download Links and Summary Page Design 
    23 ӿ Review previous studies for methylation-expression relationship  
    30 TCGA  
    30 TCGA data specifications for multiple data types and platforms 

    2013-03:
    19 Analysis of TCGA Data Structure: What is in the downloaded files? 
    19 Analysis of TCGA Data Structure: What is in the downloaded files? 
    26 ӿ DNA Methylation in TCGA Data and its Structure. 

    2013-01:
    10 Clinical data analysis for COPD  
    22 Selection of drug list used in Medcassandra and distribution of damaged drug and gene score 

    2012-12:
    04 Predicting disease predisposition patterns of the personal genome  
    18 Adjustment of drug and ADR ranking using 1000genome 

    2012-11:
    06 ̼ Network Biology and Medicine team topic summary 
    13 Statistics and improvement of drug and ADR ranking 
    29 genetic interaction for breast cancer 
    29 genetic interaction for breast cancer 

    2012-10:
    30 A genome-wide genetic interactions map for breast cancer survival 

    2012-09:
    04 ̼ Drug-side effect network analysis using ICD/Lab/Nurse rules  
    05 Plan for metastasis analysis  
    05 Plan for metastasis analysis  
    18 Drug and ADR ranking algorithm and validation scheme 
    25 Genomancer for GeoNetwork 

    2012-07:
    10 improvement way of ADR ranking algorithm 
    17 Modified results of Phenotype drug-drug interaction 
    28 analysis of epistatic interaction for breast cancer survival 

    2012-06:
    05 Network result of phenotypic drug drug interaction 
    12 ̼ Drug-Side effect Network construction using nursing statement and lab data.  

    2012-05:
    07 comparing drug network based on chemical structure vs. gene expression profile simiarlity 
    15 ȭ Functional modularity prediction of pathway-based analysis     
    22 Rocky A systems-based approach to explore interrelationships between drug targets and microRNAs target genes in human cancers using NCI-60 cancer cell lines 

    2012-04:
    17 ̼ Biological Process-Drug-Side effect Network construction plan  
    19 RNA-seq data analysis in breast cancer by protein-protein interaction database 
    19 RNA-seq data analysis in breast cancer by protein-protein interaction database 
    19 RNA-seq data analysis in breast cancer by protein-protein interaction database 
    19 RNA-seq data analysis in breast cancer by protein-protein interaction database 
    24 Review progress of phenotypic drug-drug interaction. 

    2012-03:
    02 ̼ Drug-Side effect network design and pre analysis result  
    27 ȭ Network approach for identifying oncogenic processes and candidate driver genes in colorectal cancer      

    2012-02:
    08 Rocky NCI-60 Cell lines experimental condition and genes expression profiles and drugs sensitivity analysis 

    2012-01:
    12 Construct DDI Network for Novel DDI 
    15 Review:OMIM(Tools for genomic analysis of a catalogued gene) 
    19 summary of paper replication work and discuss next step 
    26 ̼S Calculation Perturbation Sensitivity in Connectivity Map 

    2011-12:
    01 Rocky Comprehensive Analysis of Genetic Regulatory Network Regulators and Drugs using Gene Expression Profiles incorporating Genomic Variations 
    08 ̼S plan for calculation perturbation sensitivity score using Connectivity Map 
    22 ̼ Dataset of biological process-drug-side effect network  
    29 Construct a Network with Personal Variants 

    2011-11:
    03 Pharmacokinetic/Pharmacodynamic pathway mapping strategy 
    17 drug network construction for drug repositioning 
    17 PPI network for drug response prediction 
    17 Construct a Network with Variants Info. on Disease Network. 
    17 ̼ Biological Process-Drug-Side effect Network  
    17 Rocky Global map of genomic variations on microRNAs, target genes, TFBS, RNA binding proteins using variant knowledgebase to construct a multi-dimensional genetic regulatory network  
    18 ̼S GEE recovery plan 

    2011-10:
    06 Rocky Global impact on genomic variations in microRNAs, target genes and drug relationship 
    27 Construct a Network with Personal Variants. 

    2011-09:
    15 Rocky [Replication- Work Progress] - Comprehensive analysis of the impact of SNPs and CNVs on human microRNAs and their regulatory genes 
    22 Pharmacology network for drug repositioning 

    2011-08:
    04 Construct a Network Linking Personal Variations 
    18 ̼S GEE ۾ ô Ȳ ߰ ۾  

    2011-07:
    02 Assessment of overrepresented variant-set in rare disease associated genetic variants 
    02 ̼ Biological Process-Drug-ADR network to discover the relationship between biological Processes and ADR 
    02 Pharmacology network for drug repositioning 
    02 Rocky [Replication] - Comprehensive analysis of the impact of SNPs and CNVs on human microRNAs and their regulatory genes 
    14 Pharmacology network for drug repositioning 
    22 Next Generation sequencing and Methylation 
    27 ̼ Biological Process-Drug-ADR network 

    2011-05:
    02 What is TCGA? 
    09 Brainstorming on Integrative Genome Informatics (Research Topics from each member) 
    23 Brainstorming on Network biology and medicine 

    2011-04:
    07 ̼S DSGEO : Software tools for cross-platform analysis of gene expression data in GEO 
    14 ̼ review about tool for MARQ  
    18 Brainstroming on integrative genome informatics 
    25 Brainstorming on Integrative Genome Informatics 

    2011-03:
    08 ̼S test 
    10 Rocky GEOquery    
    16 Rocky GEOquery test 
    24 ̼ MARQ: an online tool to mine GEO for experiments with similar or opposite gene expression signatures 
    31 Rocky GEOquery test 

    2011-01:
    21 ̼S aa 

    2010-12:
    07 ̼S Keyword search for Microarray data using evoc term as stemmng 
    10 Rocky BioPortal: A Web Repository for Biomedical Ontologies and Data    
    15 Rocky Gene Expression Omnibus (GEO) 

    2010-11:
    05 Rocky MAGE-TAB VS MINiML 
    07 ̼S 1107 
    12 ̼S porter stemming 
    12 ̼S porter stemming  
    12 ̼ idf parsing result  
    19 ̼S Keyword search for Microarray data using evoc term as stemming 
    19 Rocky Attributes list comparison for MAGE-TAB / MINiML 

    2010-10:
    01 distinct EV_term list 
    01 distinct synonym list    
    01 ̼ DB Design _0.1 
    05 Rocky table format    
    05 ̼S SDRF-ADF-IDF relation 
    15 Rocky Parsing headers for adf.txt and unique attributes from sdrf and adf.txt files 
    17 ArrayExpress    
    20 for Busan 
    21 Rocky Parsing code for sdrf.txt attributes and extracting unique terms    
    24 empty file list among adf text 
    24 error file list among adf text 
    26 ̼ SDRF Distinct List 
    26 ̼ SDRF Full List 
    27 Rocky Extracting ArrayExpress sdrf/adf/idf unique terms 
    29 ArrayExpress adf files 
    31 adf relation 

    2010-09:
    07 ArrayExpress down 
    17 ̼S conversion SOFT to MAGE-TAB 
    17 Rocky eVOC mapping idea    

    2010-07:
    06 ̼S Make rules for conversion SOFT to MAGE-TAB 
    06 赵2 
    09 Rocky The MGED Ontology - Its Structure and Standards 
    30 ̼S make a rule 

    2010-06:
    04 ̼ MAPPING TABLE_VERSION2 
    04 Compelete GEO data handling 
    04 ̼S Represent of evocs hierarchy structure 
    04 ̼ update mapping 
    17 evoc data calculating 
    17 ̼S Plan of work and Structure of xperanto and GPL,GSM 
    17 ̼ Mage-tab mapping and xperanto table 
    17 ̼ presentation 
    17 Rocky Xperanto Table 
    25 Rocky DNA Microarray 
    25 ̼S MAGE-TAB 
    30 ̼S MIAME and research trend 

    2010-05:
    04 ̼S GEO data structure 
    07 Rocky GPL,GDS,GSE attributes lists 
    07 Parsing GDS 
    13 ̼ mapping list 
    14 ̼ mapping table (mage-tab and geo) 
    22 ̼S go м 1ϼ 
    24 ̼ geo attribute list and definition 
    24 ̼ mage tab attribute list and definition 
    24 ̼ mapping list ( geo data distict ) 
    24 ̼ mapping table_v0.1 

    2010-04:
    02 ̼S grasp structure of xperanto 
    02 Rocky  
    02 Research for GPL, GSM 
    02 ̼ Xperanto data description 
    09 ̼S file out source and MAGE TAB 
    09 Rocky eVOC table 
    09  
    09 ̼ MAGE-TAB Specification 
    16 ̼S go ontology structure 
    16 Rocky GO Term and its data structure 
    16 GSM attr List 
    16 ̼  
    23 ̼S  
    23 Rocky  
    23 GPL attr list 
    23 ̼ mage_tab 
    30 ̼S  
    30  
    30 ̼  
    30 Rocky GPL Structure 

    2010-03:
    01 ̼S Mapping and input GDS file in 1st DB 
    02 ̼ Comparison of MAGE-ML and MAGE-TAB 
    02 ̼S DB list  
    19 DATABASE TASK 
    19 Rocky OMIE: Ontology Mapping within an Interactive and Extensible Environment 
    28 DB Ϸ 

    2010-02:
    09 ̼S eVOC: A Controlled Vocabulary for Unifying Gene Expression Data    
    09 GEO and How to handle GDS file 
    09 Rocky NCBI GEO standards and services for microarray data 
    09 ̼ NCBIGEO-miningtensofmillionsofexpressionprofiles-databaseandtoolsupdate    
    09 ̼S NCBI GEO: archive for high-throughput functional genomic data    
    09 ̼S Gene Expression Omnibus: NCBI gene expression and hybridization array data repository    
    09 ̼ Minimum information about a microarray experiment (MIAME)-toward standards for microarray data    
    16 ̼S  
    16 Rocky  
    16  
    16 ̼ The MGED Ontology: a resource for semantics-based description of microarray experiments 

    2006-07:
    05 Progress in B10 data analysis 
    12 Primary schema & Extended schemata status [PlatformGEO featuremapping]
    19 α time series microarray м [[time-series]]

    2006-06:
    07 TMA DES based TMA XML export & import [TMATMA DES]
    07 Meta-analytic approach of breast cancer 
    14 New approach in importing GEO data into Xperanto (Platform) [in situ oligoraw featuremapping]
    14 α GEO source count [geo]
    21 Mantel test with different data sets 
    21 CC2Path: GEO localization (Step 1) 
    28 Mapping of local clinical code to standard vocabulary [code mappingLOINC]

    2006-05:
    03 CC2Path progress 
    03 CTMS (Clinical Trial Management System) ȹ 
    10 TG2-Knockout mouse Data Analysis    
    10 Breastome : Meta-analytic approach of breast cancer 
    17 Progress in clustering column of GEO data table : Platform [GEOPlatformdata matixcolumn]
    17 α Coexpression dynamics    
    24 Mantel test with weighted correlation 
    24 CC2Path 

    2006-04:
    05 Mantel test between gene sets 
    05 CC2Path Progress 
    12 Comparison of Meta Analysis Methods 
    12 Progress in Cybrid Data Analysis    
    19 ǥؿü Ÿ ߰ ̿ ӻ ý  
    19 α Correlation changes in module genes across experimental conditions 
    26 Plan : Importing GEO data into Xperanto 
    26 Mantel test with pathway gene set 

    2006-03:
    08 α spm  
    08 ϼ EMR ڷ м 
    15 Integration of Mantel test & MDR algorithm 
    15 PahtMeSH + miRNA progress 
    22 GEO localization 
    29 α Interpretation of inter-module relationship in SPM 
    29 Progress in Cybrid data analysis    

    2006-02:
    07 BMT data analysis 
    07 Review of Knowledge Management System 
    14 PathMeSH+miRNA 
    14 Ontology and relational model in PharmGKB 
    21 A novel approach for finding differentially co-regulated gene sets 
    21 Progress in Liver Cancer Data Analysis    
    28 Functional association from time-series microarray data 
    28 GEO progress 

    2006-01:
    03 Result of the survival analysis of liver cancer microarray data 
    03 GOChase 2 progress 
    10 PathMeSH: gene-centric pathway view 
    10 Mitochondria Cybrid Data Analysis 
    17 Gene factoring with modified R-mode factor analysis 
    17 Analysis of Time Series Gene Expression Data 
    24 ๰ü DB Է Ȳ  
    24 α Order-preserving tendency of BP, MF, CC GO-slim term in SMD dataset 

    2005-12:
    06 α Cluster viewer demonstration 
    06 Survival analysis of liver cancer microarray data 
    13 Association between disease and pathway 
    13 Xperanto-TMA: Templates and Data Elements 
    20 GOChase 2 
    20 Applying Factor analysis to microarray data 
    27 BMT data analysis results 
    27 α Measuring order-preserving tendency of co-regulated genes with Kullback-Leibler divergence 

    2005-11:
    01 Estimate genetic subnetwork with SEM 
    01 Radiation Data Analysis 
    08 α ü ڷм 
    08 Liver Cancer Data Analysis: focusing on Recurrence 
    15 Cancer Genomics Object Model :An Object Model for Cancer Research using Functional Genomics Data 
    15 Get over biological problem in statistical microarray analysis 
    22 Survival analysis of liver cancer microarray data 
    29 Cancer Genomics Object Model :An Object Model for Cancer Research using Functional Genomics Data 
    29 Uncovering transcriptional regulation of metabolism by using metabolic network topology 

    2005-10:
    04 Bone Marrow Transplantation Microarray Analysis 
    11 Cancer Genomics Object Model: An Object Model for Cancer Research using functional genomics data 
    11 Extensive information for SNP chip analysis 
    18 Liver cancer data analysis using BIOCANDI 
    18 PathMeSH  
    25 Survival analysis of liver cancer data 

    2005-09:
    06 Data Analysis: Hepatocelluar Carcinoma Data 
    06 GOChase 2 progress - (manuscript & web interface) 
    13 Construction of GRIP 
    13 Analysis of Hapatocellular Carcinoma Data 
    27 ๰ü DB  

    2005-08:
    02 Affy chip Analysis in BioCANDi 
    02 α Multiple test corrections in SPM 
    09 Existing and emerging toxicogenomics databases 
    09 XPERANTO (Recent advances & migration) 
    16 Summary of CC2Path 
    16 GSEA(gene set enrichment analysis) package 
    23 Toxicogenomic issues of microarray experiment (review) 
    30 Sequence-Gene , Gene-Protein Category Association table ۼ 
    30 α Mouse lymphoma microarray analysis 2 

    2005-07:
    05 Gene Identifier ο ִ idea 
    05 An error in using FDR 
    12 α terminal GO ð ߷ 
    12 GOChase 2 progress (web interface) 
    19 Hepatocelluar carcinoma data analysis : Preprocessing 
    19 Scoring of clustered data using Mutual Information 
    26 Identification of Pathways related to Pathologic Status in Lung cancer using Global Test 
    26  

    2005-06:
    07 α K-means clustering for filtering large number of sequential patterns 
    07 Integration of TMA-OM and MAGE-OM: Scenario and draft model 
    14 XPERANTO Progress (Biocandi 2 and Project) 
    14 Biological Interpretation of Radiation Data 
    21 PathTalks: the fourth step [PathTalk]
    28 ̼ ۸ м ABI м 
    28 Identification of Pathways related to the lymph node metastasis in lung cancer using Global test 

    2005-05:
    03 Identification of Pathway related to the Clinical Outcome within Microarray data using Global Test 
    03 Summary of TMA-OM and Xperanto-TMA 
    10 Sequence Level & Gene Level Ȳ 
    10 Progress of GOChase 2 
    17 Liver Cancer м 
    24 α How to conclude sequential pattern mining 
    24 PathTalk: the third step [PathTalk]
    31 Identification of pathways related to the pathologic status of squamous cell carcinoma of uterine cervix using global test 
    31 New_GRIP :Prosite and Pfam 

    2005-04:
    12 ̼ ü м 
    12 [Plan]Extension of Venn Diagram 
    19 Progress of GOChase 2- Error (redundant and inconsistent annotation error) confirm 
    26 PathTalk: the second step [PathTalk]

    2005-03:
    04 Finding human SNPs miRNA genomic position related 
    04 ̼ NA 
    11 NA 
    11 NA 
    18 α Sequential pattern mining with gap limit & ɱԼ ̵  
    22 GOChase 2: additional errors (implicit and true path rule errors) in GO-based annotations for gene products 
    22 MapGO progress 
    29 GRIP Progress ( sequence ) 

    2005-02:
    04 ¼ Secondary analysis of arrary CGH data 
    04 NA 
    18 α NA 
    25 Analysis of gastric cancer tissue microarray data 

    2005-01:
    07 BAC Clones resolved 
    07 object model and relational database for tissue microarray 
    14 ¼ array CGH data analysis 
    14 NA 
    21 NA 
    21 α NA 
    28 Web based ArrayCGH data analysis tool (1/2) 
    28 NA 

    2004-12:
    03 MIAME/Onc  
    03 GOFCA - apply cell cycle data and liver cancer data - 
    10 ̼ȣ BioCandi : Further Plan 
    10 α NA 
    17 NA 
    24 NA 
    24 Comparison of XPERANTO and mAdb 
    31 NA 
    31 α NA 

    2004-11:
    05 NA 
    05 PathFCA: applied Mouse Kidney Data 
    12 ȭ Clinical-Genomic integration within CDA - INTRO. 
    12 NA 
    19 ̼ȣ NA 
    26 PK Profile ý  
    26 ๰ü genotype data human whole genome mapping display ϱ 

    2004-10:
    01 Affy data in XPERANTO(XPERANTO Release plan –1) 
    01 Clustering Analysis using FCA 
    08 ȭ Extraction of standardized XML DTD (structural constraints) from clinical document 
    08 α Biological justification of order-preserving submatrix 
    22 Object model for Tissue microarray 
    22 ̼ȣ BioCandi Reformulation 
    29 PharmacoGenomics ɺо Ȳ 
    29 KPRN data Է  

    2004-09:
    17 α The Biginning 
    24 Beginning of AppGen 

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