27 | Summary and Overview of Personal Genome Deciphers team | SysBiol |
07 | Previous seminar summary & current seminar overview | Seminar |
06 | Phenotypic Signature | Seminar | ||
24 | SNPedia: a wiki supporting personal genome annotation, interpretation and analysis | ![]() |
J.Club |
02 | Genetic risk reporting | SysBiol |
13 | Previous seminar summary & current seminar overview | Seminar | ||
13 | Predicting phenotype from genotype | Seminar | ||
29 | Correlated genotypes in friendship networks | ![]() |
J.Club |
07 | SNPedia data structure & Variant annotation | Seminar |
27 | Automated validation of genetic variants from large databases ensuring that variant references refer to the same genomic locations | ![]() |
J.Club |
02 | The use of VAAST to identify an X-linked disorder resulting in lethality in male infants due to N-terminal acetyltransferase deficiency | ![]() |
J.Club | |
29 | Personal genome variants annotation | SysBiol |
10 | Building SNP-Phenotype association database | ![]() |
SysBiol | |
29 | Personal Genome Deciphers team progress report | TopicSem |
21 | Global analysis of disease-related DNA sequence variation in 10 healthy individuals: implications for whole genome-based clinical diagnostics | ![]() |
J.Club |
02 | Improving disease gene prioritization using the semantic similarity of Gene Ontology terms | ![]() ![]() |
J.Club |
14 | To improve the semantic signature work | TopicSem |
06 | Lattice on BMA semantic space | Seminar | ||
23 | Lattices on BMA semantic space | Seminar |
01 | Evaluation plan for term-wise and geneset-wise semantic measure | Seminar | ||
25 | Evaluation of semantic measure I | Seminar |
14 | Application of a new geneset-wise measure for building semantic space | Seminar |
03 | BioCLASS : Semantic space checks | Seminar | ||
14 | BioCLASS-Biological Concept Lattice on Annotated Semantic Space | Seminar | ||
28 | Semantic distance distribution for re-selected geneset | Seminar |
20 | BioCLASS work progress 0620 | Seminar |
16 | BioLattice work progress | Seminar | ||
30 | BioCLASS work progress | Seminar |
11 | BioLattice software update & analysis plan | Seminar | ||
25 | BioLattice software update | Seminar |
03 | Unified GO annotation | Seminar | ||
21 | Question of biological interpretation of distance map for toxicant lattices | Seminar | ||
29 | NetworkBLAST: Comparative analysis of protein networks | ![]() |
J.Club |
04 | Incomplete issues in BioLattice | Seminar |
16 | Microarray analysis of C.parvum | Seminar |
07 | geneset extension for semantic distance | Seminar | ||
28 | Biolattice future directions | Seminar | ||
29 | Quantitative assessment of relationship between sequence similarity and function similarity | ![]() |
J.Club |
08 | Working plan for BioCLASS | Seminar | ||
11 | A New Method to Measure the Semantic Similarity of GO terms | ![]() |
J.Club | |
24 | BioCLASS work progress | Seminar |
04 | BioCLASS : work progress | Seminar | ||
07 | Developing a similarity measure in biological function space | ![]() ![]() |
J.Club | |
20 | BioCLASS work progress | Seminar |
02 | FatiGO and GAzer | J.Club | ||
15 | BioCLASS : Biological Concept Lattice on Annotated Semantic Space | Seminar |
04 | geneset functional space using gene ontology | Seminar | ||
25 | CLASS : Concept Lattice on Annotated Semantic Space | Seminar |
07 | Lattice application on geneset functional space II | Seminar | ||
23 | Lattice application on geneset functional space III | Seminar |
09 | Lattice aplication on geneset functional space | Seminar | ||
24 | Identifying clusters of functionally related genes in genome | ![]() ![]() |
J.Club |
06 | Combining functional and topological properties to identify core modules in protein interaction networks | ![]() ![]() |
J.Club | |
17 | semantic similarity between concepts in lattice with human pathways | Seminar |
06 | semantic similarity between concepts in lattice with pathways | Seminar | ||
27 | semantic similarity between concepts in lattice with pathways II | Seminar |
16 | Lattice similarity measure | Seminar | ||
25 | Progress in lattice similarity measure | Seminar |
30 | Assessing semantic similarity measures for the characterization of human regulatory pathways [Semantic distance] | ![]() ![]() |
J.Club |
08 | Integrated analysis of gene expression by Association Rules Discovery | ![]() ![]() |
J.Club | |
10 | Similarity measures for lattices | Seminar |
04 | Instance-based concept learning from multiclass DNA microarray data | ![]() ![]() |
J.Club | |
16 | BioLattice application II | SysBiol |
10 | Rule mining from concept lattice | SysBiol | ||
27 | BioLattice Application - relational pattern - | Seminar |
20 | Rule mining from Concept Lattice | SysBiol | ||
21 | Biological profiling of gene groups utilizing gene ontology | ![]() ![]() |
J.Club |
02 | Genome Annotation Report | SysBiol | ||
05 | Comparative Genomics for Orientia | Seminar | ||
26 | Rule mining from BioLattice | Seminar | ||
30 | Orientia genome annotation update | SysBiol |
07 | BioLattice ü | Seminar |
07 | research plan | SysBiol | ||
15 | PAGE: Parametric Analysis of Gene Set Enrichment | ![]() ![]() |
J.Club | |
24 | microBLAST | Seminar | ||
28 | correlation of transcriptome and interactome | SysBiol |
09 | Short BioLattice Manuscript | SysBiol |
12 | BioLattice manuscript (artworks) | SysBiol | ||
27 | Using process diagrams for the graphical representation of biological networks | ![]() ![]() |
J.Club |
23 | Comparison of computational methods for the identification of cell cycle-regulated genes | ![]() ![]() |
J.Club |
10 | Biological interpretation of BioLattice results | SysBiol | ||
13 | Biological interpretation of BioLattice results [SysBiol] | Seminar |
06 | Representation and visualization of cluster relationship | SysBiol |
08 | BioLattice analysis results | SysBiol |
03 | BioLattice work report | SysBiol | ||
26 | CLOE Identification of putative functional relationships among genes by comparison of expression profiles between two species | ![]() ![]() |
J.Club |
03 | Supporting evidence to modular organization | SysBiol |
10 | A function-based framework for understanding biological systems | ![]() |
J.Club |
02 | GO-FCA work progress | SysBiol | ||
30 | Progress note for BioLattice | SysBiol |
16 | Using the gene ontology for microarray data mining | ![]() ![]() |
J.Club |
07 | Formal Concept Analysis and Application | Seminar | ||
23 | Total context view of clusters using FCA | SysBiol |
07 | Predicting Gene Expression from Sequence | ![]() ![]() |
J.Club |
03 | Methods for automated concept mapping between medical databases | ![]() ![]() |
J.Club | |
14 | Bioconductor Basics | MAInfo |
09 | DIB-C | MAInfo |
15 | Quantifying the relationship between co-expression, co-regulation and gene function | ![]() ![]() |
J.Club | |
19 | Difference-Based Clustering of Time Series Data | MAInfo |
03 | Inferring transcriptional regulation relationship from microarray time series data | ![]() ![]() |
J.Club | |
14 | Analysis of responsive genes after Low-Dose Ionizing Radiation Using Evolutionary Algorithm | MAInfo |
07 | Statistical resynchronization and Bayesian detection of periodically expressed genes | ![]() ![]() |
J.Club | |
19 | Simulation study to measure cyclicity in microarray expression profile | MAInfo |
27 | Monthly report | MAInfo | ||
29 | Preprocessing cell-cycle microarray data using PERL | MAInfo |
04 | What should I make bed? T.T | MAInfo | ||
13 | Computational discovery of gene modules and regulatory networks | ![]() ![]() |
J.Club |
08 | Expression deconvolution: A reinterpretation of DNA microarray data reveals dynamic changes in cell populations | ![]() ![]() |
J.Club |
01 | Questions about microarray data analysis | Seminar |
03 | The consistency related problems to handle microarray data | Seminar |
16 | Analysis of cell-cycle-specific gene expression in human cells as determined by microarrays and double-thymidine block synchronization | ![]() ![]() |
J.Club |
08 | Genome-wide expression analysis | Seminar |
13 | A multivariate approach applied to microarray data for identification of genes with cell cycle-coupled transcription | ![]() ![]() |
J.Club |
18 | Genome browser implementation | Seminar |
07 | Annotation work summary | Seminar | ||
16 | Microarray analysis of orthologous genes: conservation of the translational machinery across species at the sequence and expression level | ![]() ![]() |
J.Club |
12 | "Genome annotation framework [pdf]" | Seminar | ||
21 | The meaning of it all: web-based resources for large-scale functional annotation and visualization of DNA microarray data | ![]() ![]() |
J.Club |
29 | Genome annotation strategy | Seminar |
27 | Chronobiological analysis for the reliable identification of cell-cycle regulated genes from gene expression profiles | Seminar |
07 | Automation of Annotation | Seminar |
16 | Re-annotation of genome microbial coding-sequence: finding new genes and inaccurately annotated genes | ![]() ![]() |
J.Club |
14 | Introduction to Affymetrix Chip Algorithm | Seminar |