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2013-07:
12 Health Avatar Platform: a personalized healthcare service platform for interacting healthcare agents and health avatar  Seminar

2012-02:
04 CancerResource: a comprehensive database of cancer-relevant proteins and compound interactions supported by experimental knowledge     J.Club
07 1000 genome analysis: race variant about drug targets and enzyme  Seminar

2011-12:
24 PROMISCUOUS: a database for network-based drug-repositioning     J.Club

2011-10:
29 PREDICT: a method for inferring novel drug indications with application to personalized medicine.     J.Club

2011-09:
07 Personal genome sequencing platform  Seminar

2011-08:
22 Microarray Data Analysis  TopicSem
24 Sequence data analysis  TopicSem
27 Discovery and preclinical validation of drug indications using compendia of public gene expression data      J.Club

2011-07:
16 Gene-Disease Network Analysis Reveals Functional Modules in Mendelian, Complex and Environmental Diseases     J.Club

2011-05:
28 CCancer a birds eye view on gene lists reported in cancer-related studies      J.Club

2011-04:
02 PathLocdb: a comprehensive database for the subcellular localization of metabolic pathways and its application to multiple localization analysis     J.Club
08 discuss about integration of analysis result and biological knowledgebase  SysBiol

2011-03:
25 paper review about COSMIC, Oncomine  SysBiol

2011-02:
12 Enrichment Map: A Network-Based Method for Gene-Set Enrichment Visualization and Interpretation     J.Club

2011-01:
05 Contents for AXP  TopicSem
26 Contents and introduction  TopicSem
31 Contents   TopicSem

2010-12:
11 Mutated genes, pathways and processes in tumours     J.Club
15 Interpretation of high-throughput genomic data using integrated biological pathway resources and biomedical knowledge  TopicSem
29 a  SysBiol

2010-11:
03 MetaPath: a pathway extension from gene lists using literature  TopicSem
15 Flow chat for AXP analysis  Seminar
24 Concept of AXP  SysBiol
29 System architecture and analysis flow for AXP  Seminar

2010-10:
04 Result of Pubmed between 1980 and 1989  Seminar
16 Systematic analysis, comparison, and integration of disease based human genetic association data and mouse genetic phenotypic information     J.Club
18 Architecture for AXP 3.0  Seminar
20 ppt  SysBiol

2010-09:
08 MetaPath: case study of GBM  TopicSem

2010-08:
16 purpose of each search method in pathway tools  Seminar
28 PathText: a text mining integrator for biological pathway visualizations     J.Club

2010-07:
01 summary  SysBiol
05 PathTest  Seminar
17 MADNet: microarray database network web server     J.Club
29 MetaPath: an integrated pathway database enable to search biomedical context  TopicSem

2010-06:
03 AXPIII  SysBiol
07 Parsing pathway data: syntactic integration  Seminar
10 Organization of AXP concept  SysBiol

2010-05:
03 Item for AXP III  Seminar
29 A Pathway-Based View of Human Diseases and Disease Relationships     J.Club

2010-04:
17 HPD: an online integrated human pathway database enabling systems biology studies     J.Club
19 Define AXP pathways and integrated methods  Seminar

2010-03:
06 PID: the Pathway Interaction Database     J.Club
15 Pathway classification and pathway model  Seminar

2010-02:
04 Killer application  SysBiol
08 Review SBGN for PathViz and think about killer item  Seminar
11 PathComp  SysBiol
16 Item for PathTest, PathComp  Seminar
18 pahtcomp  SysBiol
22 Pilot test for PathComp  Seminar

2010-01:
11 ArrayXPath III: summary concepts and plan  Seminar
15 Network analysis  SysBiol
18 Plan and summary ArrayXPath sub systems  Seminar
30 PathCase: pathways database system  J.Club

2009-12:
07 Network biology and ArrayXPath team  Seminar
14 Plan for NBA team  Seminar
19 Drug target identification using side-effect similarity     J.Club
21 Comparison between biological pathway database  Seminar
28 Biological pathway-based analysis  Seminar
30 MetaPath: a meta-database for public biological pathway database  Seminar

2009-11:
09 MetaPath: summary of concept  Seminar
14 WhichGenes: a web-based tools for gathering, building, storing and exporting gene sets with application in gene set enrichment analysis     J.Club
18 Checkpoint gene set analysis tools  Seminar
30 Netwrok biology and pathway team  Seminar

2009-10:
05 MetaPath: Introduction (2)  Seminar
21 MetaPath: introduction and concept  Seminar
24 KEGGconverter: a tool for the in-silico modelling of metabolic networks of the KEGG Pathways database     J.Club

2009-09:
09 Developing Decision Support Systems in Clinical Bioinformatics  BookReading
12 A semantic web approach to biological pathwa data reasoning and integration     J.Club
16 MetaPath: introduction, and replicate Cheung et al (2006)  Seminar

2009-08:
10 MetaPath: ǥ XML 2  Seminar
27 MetaPath: ǥ 3  Seminar

2009-07:
02 MetaPath: a meta-model for integaration of standard biological pathway format  Seminar
23 MetaPath: ǥ н   Seminar
25 ConsensusPathDB - a database for integraing human functional interaction networks     J.Club

2009-06:
01 MetaPath: an implementation of meta-database for biological pathway  Seminar
18 Plan for ArrayXPath 3.0  Seminar
20 Cerebral: a Cytoscape plugin for layout of and interaction with biological networks using subcellular localization annotation     J.Club
24 Developing a DNA Variant Database  BookReading

2009-05:
09 Medusa: a simple tool for interaction graph analysis and STRING database     J.Club
13 Clinical Uses of Microarrays in Cancer Research  BookReading
14 CelMAP:   Seminar

2009-04:
09 CelMAP: progress - pathway case study(3)  Seminar
27 Case study: modify original pathway using protein subcellular prediction algorithm  Seminar

2009-03:
02 CelMAP: progress - ߰  Seminar
19 CelMAP: progress - select case study  Seminar
28 PathExpress: a web-based tool to identify relevant pathways in gene expression data       J.Club

2009-02:
12 CelMAP: progress - search literature  Seminar
21 An integrative approach for biological data mining and visualization     J.Club

2009-01:
03 Systematic reconstruction of TRANSPATH data into cell system markup language       J.Club
05 CelMAP: progress - clustering result  Seminar
17 KEGG spider: interpretation of genomics data in the context of the global gene metabolic network       J.Club
22 CelMAP: progress - map on pathway  Seminar

2008-12:
01 CelMAP: progress - sum algorithm result  Seminar
15 CelMAP: progress  Seminar

2008-11:
06 CelMAP: Progress  Seminar
08 A global pathway crosstalk network     J.Club
24 CellMAP: an integrated pathways map using cellular location  Seminar

2008-10:
02 CelMAP: progress  Seminar
20 CelMAP: progress  Seminar

2008-09:
11 CelMAP: input list for protein predection algorithm  Seminar
27 Reconstructing networks of pathways via significance analysis of their intersections.       J.Club

2008-08:
02 Exploring the functional landscape of gene expression: directed search of large microarray compendia       J.Club
11 CelMap: ߰  Seminar
23 A gene recommender algorithm to identify coexpressed genes in C. elegans       J.Club
28 CelMAP: genomic and mRNA sequence  Seminar

2008-07:
14 CC2Gene: a re-annotation and gene-centric integration for GPL  Seminar
31 CelMAP: Progress  Seminar

2008-06:
16 CelMAP: perform protein localization algorithm  Seminar
28 Use and miuse of the gene ontology annotations     J.Club
30   Seminar

2008-05:
03 The OBO Foundry: coordinated evulution of ontologies to support biomedical data integration     J.Club
09 My Plan  Seminar
26 CelMAP: perform WolfPSORT  Seminar
31 The Mouse Tumor Biology database     J.Club

2008-04:
05 SPIKE - a databse, visulization and analysis tool of cellular signaling pathways     J.Club
07 Update Pathway DB and review protein subcellular localization  Seminar
21 CelMap: an integrated knowledge map using biological pathways and subcellular location  Seminar

2008-03:
14 PID example  Seminar

2008-02:
15 pathway database update  Seminar
16 KEGGanim: pathway animations for high-throughput data     J.Club
29 Pathway update  Seminar

2008-01:
04 Update pathwya database  Seminar
05 Towards zoomable multidimensional maps of the cell  J.Club
18 update pathway database  Seminar

2007-12:
04 ArrayXPath: Database update  Seminar
28 CeLMAP: integrated pathways map using cellular location information  Seminar

2007-11:
03 An architecture for biomedical semantic map: an integrated map from biology to clinical  J.Club
16 How to get gold standard for biological study?  Seminar
24 PAZAR: a framework for collection and dissemination of cis-regulatory sequence annotation       J.Club

2007-10:
12 Sematic integration (My approach)  Seminar
13 Advancing translational research with the Semantic Web  J.Club
26 Semantic integration (refine idea)  Seminar

2007-09:
05 Semantic integration  Seminar
21 Semantic integration  Seminar

2007-08:
01 GPL probes matcher  Seminar
18 Semantic Search among Heterogeneous Biological Databases Based on Gene Ontology [Semantic integration]    J.Club
22 Sematic integration  Seminar

2007-07:
14 The Gene Set Builder: collation, curation, and distribution of sets of genes [gene set]      J.Club
18 Progress of Gene mapping  Seminar

2007-06:
09 AffyMiner: mining differentially expressed genes and biological knowledge in GeneChip microarray data     J.Club
13 Gene mapping progress in GPL  Seminar
29 Gene mapping in GPL porgresws  Seminar

2007-05:
07 Gene Mapping in GPL (progress)  Seminar
23 Gene mapping in GPL using new relation table of new GRIP  Seminar

2007-04:
11 Gene mapping  Seminar
14 cPath     J.Club

2007-03:
02 CC2Path: import GEO part3  Seminar
03 Integrating domain knowledge with statistical and data mining methods for high density genomic SNP disease association analysis     J.Club
21 CC2Path: import GPL (part 4)  Seminar

2007-02:
07 CC2Ppath:  Seminar

2007-01:
12 CC2Path: import GPL  Seminar
13 GenMAPP2.1  J.Club

2006-12:
01   Seminar
09   J.Club
29 integration of pathway and GO  Seminar

2006-11:
10 Pathwya Map  Seminar

2006-10:
14 BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments.     J.Club
20 Pathway map  Seminar

2006-07:
01 CoPub Mapper: mining MEDLINE based on search term co-publication     J.Club
06 ArrayXPath: map on homologene     SysBiol

2006-06:
05 Review pathway systems  Seminar
08 CellMAP progrerss  SysBiol
12 GEO localization  Seminar
21 CC2Path: GEO localization (Step 1)  xMutant

2006-05:
03 CC2Path progress  xMutant
18 CellMap for pathway [pathway mapintegration of GO and pathway] SysBiol
24 CC2Path  xMutant
27 Graph-based analysis and visulization of experimental results with ONDEX     J.Club

2006-04:
05 CC2Path Progress  xMutant
06 Pathway mapping  SysBiol
10 Cell graph for pathways & (н ԷȲ)  Seminar
15 CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks     J.Club

2006-03:
09 PathMeSH + miRNA progress  SysBiol
15 PahtMeSH + miRNA progress  xMutant
25 WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data       J.Club

2006-02:
14 PathMeSH+miRNA  xMutant

2006-01:
10 PathMeSH: gene-centric pathway view  xMutant
13 ArrayXPathIII: Implementation of Mutual Information  SysBiol

2005-12:
12 ArrayXPath-III and ArrayXPath-Homolog: ..  Seminar
13 Association between disease and pathway  xMutant
23 ArrayXPathIII: localize KEGG pathways using KEGG API  SysBiol

2005-11:
25 Plan for ArrayXPath and add a function  SysBiol

2005-10:
10 PathTalk [PathTalk] Seminar
18 PathMeSH   xMutant
28 Idea for ArrayXPath III  SysBiol
29 A network-based analysis of systemic inflammation in humans       J.Club

2005-09:
03 Generalized biological database platform based on cross-referenced tables(XRT)     J.Club
09 Frame work of GRIP  SysBiol
13 Construction of GRIP  xMutant
30 Idea of pathway merge  SysBiol

2005-08:
16 Summary of CC2Path  xMutant
19 newGRIP manuscript  SysBiol

2005-07:
16 GoPubMed: exploring PubMed with the Gene Ontology       J.Club
19 Scoring of clustered data using Mutual Information  xMutant
22 Chip2Chip  SysBiol
29 Biological mode and knowledge based conversion for microarray  SysBiol

2005-06:
10 Summary GRIP concept for manuscript  SysBiol
21 PathTalks: the fourth step [PathTalk] xMutant

2005-05:
06 Item sets for newGRIP  SysBiol
24 PathTalk: the third step [PathTalk] xMutant
28 GeneWays: a system for extracting, analyzing, visualizing,and integrating molecular pathway data       J.Club

2005-04:
01 PathCross: the first step  SysBiol
26 PathTalk: the second step [PathTalk] xMutant

2005-03:
03 Manuscript for AXP 2.0  SysBiol
12 Review ArrayXPath [AppGen] Seminar
22 MapGO progress  xMutant

2005-01:
13 The development present status of ArrayXPath 2.0  SysBiol
21 NA  xMutant
27 Strategy for ArrayXPath  SysBiol

2004-12:
02 ArrayXPath plan for NGIC project  SysBiol
03 GOFCA - apply cell cycle data and liver cancer data -  xMutant
23 Items of ArrayXPath 2.0  SysBiol
31 NA  xMutant

2004-11:
04 ArrayXPath: version 2.0  SysBiol
05 PathFCA: applied Mouse Kidney Data  xMutant
13 Local correlation of expression profiles with gene annotation - proof of concept for a general conciliatory method       J.Club

2004-10:
01 Clustering Analysis using FCA  xMutant
11 PathMesh: database of pathway and drug related disease  Seminar

2004-09:
04 TRANSFAC, TRANSPATH and CYTOMER as starting points for an ontology of regulatory networks     J.Club
23 PathMesh - Writing manuscript -  SysBiol

2004-08:
31      J.Club

2004-07:
06 Mapping between the Disease Names of OMIM and MeSH [ClinInfo] Seminar

2004-06:
26 TRMP: A Dataqbase of Therapeutically Relevant Multiple-Pathways       J.Club
29 Database of Association between disease and pathway [Grip] Seminar

2004-03:
20 The PEPR GeneChip data warehouse, and implementation of a dynamic time series query tool (SGQT) with graphical interface       J.Club

2004-02:
28 Computational knowledge integration in biopharmaceutical research       J.Club

2004-01:
03 GenePublisher: Automated analysis of DNA microarray data       J.Club

2003-11:
22 PathMAPA: a tool for displaying gene expression and performing statistical tests on metabolic pathways at multiple levels for Arabidopsis       J.Club

2003-10:
04 Pathways database system: an integrated system for biological pathways       J.Club

2003-08:
16 Global functional profiling of gene expression       J.Club

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