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- Biouml.plugins.obo (plugin) (8 revisions)
- Ru.biosoft.server.tomcat (plugin) (8 revisions)
- Com.developmentontheedge.server (plugin) (8 revisions)
- Upstream analysis (TRANSFAC(R) and GeneWays) (workflow) (8 revisions)
- Biouml.plugins.lucene (plugin) (8 revisions)
- Proteins - Ensembl (8 revisions)
- ChIP-Seq - Identify TF binding sites on peaks (TRANSFAC(R)) (workflow) (8 revisions)
- New BioStore (8 revisions)
- Com.developmentontheedge.util (plugin) (8 revisions)
- Defines.js (8 revisions)
- Biouml.plugins.gne (plugin) (8 revisions)
- Upstream analysis (TRANSFAC(R) and TRANSPATH(R)) (workflow) (8 revisions)
- Analyze promoters (TRANSFAC(R)) (workflow) (8 revisions)
- Biouml.plugins.chebi (plugin) (8 revisions)
- Diagram view part (extension point) (8 revisions)
- Biouml.plugins.stochastic (plugin) (8 revisions)
- ChIP-Seq - Identify TF binding sites on peaks for multiple datasets (TRANSFAC(R)) (workflow) (8 revisions)
- Ru.biosoft.services (plugin) (8 revisions)
- Biouml.plugins.agentmodeling (plugin) (8 revisions)
- Descrete events (8 revisions)
- Biouml.plugins.matlab (plugin) (8 revisions)
- Biouml.plugins.svg (plugin) (8 revisions)
- SIF (file format) (8 revisions)
- Ensembl (8 revisions)
- Biouml.plugins.sbgn (plugin) (8 revisions)
- Ru.biosoft.access.search (plugin) (8 revisions)
- Biouml.plugins.test (plugin) (8 revisions)
- Biouml.plugins.graphml (plugin) (8 revisions)
- Hierarchical layout (8 revisions)
- ChIP-Seq - Identify and classify target genes (workflow) (8 revisions)
- Ru.biosoft.treetable (plugin) (8 revisions)
- Compute differentially expressed genes (Agilent probes) (workflow) (8 revisions)
- Transplorer (8 revisions)
- ChIP-Seq - Identify composite modules on peaks (TRANSFAC(R)) (workflow) (8 revisions)
- Biouml.plugins.proteinmodel (plugin) (8 revisions)
- Biouml.plugins.gxl (plugin) (8 revisions)
- Rbiouml (8 revisions)
- Compute differentially expressed genes (Illumina probes) (workflow) (8 revisions)
- BioUML format (8 revisions)
- Cross cost grid layout (8 revisions)
- Biouml.plugins.miriam (plugin) (8 revisions)
- Biouml.plugins.uniprot (plugin) (8 revisions)
- Biouml.plugins.genenet (plugin) (8 revisions)
- Biouml.plugins.psimi (plugin) (8 revisions)
- Locations of best sites (analysis) (7 revisions)
- Galaxy cloud (7 revisions)
- Genes - Ensembl (7 revisions)
- CellML (file format) (7 revisions)
- SBML (file format) (7 revisions)
- Expression mapping (7 revisions)
- BED format (7 revisions)
- Genes - Entrez (7 revisions)
- Image (element type) (7 revisions)
- C-tau (7 revisions)
- Repository pane toolbar (7 revisions)
- Genes - GenBank (7 revisions)
- Compute differentially expressed genes using Hypergeometric test (Agilent probes) (workflow) (7 revisions)
- Find common effectors in networks (GeneWays) (workflow) (7 revisions)
- Find master regulators in networks (GeneWays) (workflow) (7 revisions)
- SED-ML file (7 revisions)
- Compute differentially expressed genes using Hypergeometric test (Illumina probes) (workflow) (7 revisions)
- CNVnator genotype output (file format) (7 revisions)
- Binding regions summary (analysis) (7 revisions)
- Lucene indexes creation (7 revisions)
- Overall circulation model (7 revisions)
- GenBank format (7 revisions)
- Gene set enrichment analysis (Agilent probes) (workflow) (7 revisions)
- GinSim (file format) (7 revisions)
- IPS ROC-curves (analysis) (7 revisions)
- Gene set enrichment analysis (Gene table) (workflow) (7 revisions)
- SAM or BAM alignment file (7 revisions)
- Export (extension point) (7 revisions)
- Mapping to ontologies (Gene table) (workflow) (7 revisions)
- Danon et al. Covid-19 transmission in England (7 revisions)
- Fasta format (7 revisions)
- ROC curves for best sites union (analysis) (7 revisions)
- TRANSFAC matrices format (7 revisions)
- Proteins - IPI (7 revisions)
- Breakdancer output (file format) (7 revisions)
- SISSRs output (file format) (7 revisions)
- Graph search (7 revisions)
- Proteins - UniProt (7 revisions)
- Common class (extension point) (7 revisions)
- Biouml.plugins.antimony (plugin) (7 revisions)
- TRANSFAC profile (file format) (7 revisions)
- Disease - MeSH (7 revisions)
- Genome Browser iframe (7 revisions)
- EMBL format (7 revisions)
- Quasi-steady-state analysis example (7 revisions)
- Force directed layout (7 revisions)
- Find master regulators for multiple gene sets (GeneWays) (workflow) (7 revisions)
- SBML(CellDesigner) (file format) (7 revisions)
- Correlations of best sites (analysis) (7 revisions)
- Proteins - Reactome (7 revisions)
- ChIP-Seq characteristics distribution (analysis) (7 revisions)
- Normalize (host object) (7 revisions)
- Perspective (7 revisions)
- VCF format (6 revisions)
- Modular modeling (6 revisions)
- Find master regulators for multiple gene sets (TRANSPATH(R)) (workflow) (6 revisions)
- Count olig frequencies (analysis) (6 revisions)
- Gene expression prediction (6 revisions)
- Proteins - RefSeq (6 revisions)
- HTML file (6 revisions)
- Matrix (element type) (6 revisions)
- BioUML server (6 revisions)
- Probes - Affymetrix (6 revisions)
- Image file (6 revisions)
- General Feature Format (6 revisions)
- Varscan output (file format) (6 revisions)
- CloudMan (6 revisions)
- Extract ribosomal RNA (analysis) (6 revisions)
- Biopath (6 revisions)
- Pindel output (file format) (6 revisions)
- Find common effectors in networks (TRANSPATH(R)) (workflow) (6 revisions)
- Transcripts - RefSeq (6 revisions)
- Find master regulators in networks (TRANSPATH(R)) (workflow) (6 revisions)
- Tabular (file format) (6 revisions)
- Analyze SNP list (GTRD) (workflow) (6 revisions)
- Biouml.plugins.affymetrix (plugin) (6 revisions)
- Wiggle format (6 revisions)
- Patient-specific cardiovascular model (6 revisions)
- Viewpart (6 revisions)
- GeneXplain GmbH (6 revisions)
- Non-merged ChIP-Seq tracks summary (analysis) (6 revisions)
- Interval format (6 revisions)
- Search tools (6 revisions)
- Text file (6 revisions)
- Biouml.plugins.pharm (plugin) (6 revisions)
- Modular model of the human CVS v.1 (6 revisions)
- Systems biology - Get started (6 revisions)
- Biouml.plugins.mirbase (plugin) (6 revisions)
- ZIP-archive (file format) (6 revisions)
- Text output file generated by R (file format) (6 revisions)
- VAT output (file format) (6 revisions)
- Repository (6 revisions)
- Gene Transfer Format (6 revisions)
- Virtual rat (5 revisions)
- Table (element type) (5 revisions)
- Systems biology - model export (5 revisions)
- Substances - ChEBI (5 revisions)
- File (element type) (5 revisions)
- Visual modeling (5 revisions)
- SDF file (5 revisions)
- Biouml.plugins.node (plugin) (5 revisions)
- Gathering genome statistics (analysis) (5 revisions)
- Pathways - Reactome (5 revisions)
- Pathways - Transpath (5 revisions)
- Download (5 revisions)
- BioBlend (5 revisions)
- Enrichment (host object) (5 revisions)
- Biouml.plugins.riboseq (plugin) (5 revisions)
- Institute of Systems Biology (5 revisions)
- GO installation (5 revisions)
- Prepare Search by regulation (analysis) (5 revisions)
- Combined track (5 revisions)
- Analyze SNP list (TRANSFAC(R)) (workflow) (5 revisions)
- Cis-module identification (analysis) (5 revisions)
- Proteins - GenBank (5 revisions)
- Ru.biosoft.graphics (plugin) (5 revisions)
- Common and IPS scores correlation (analysis) (5 revisions)
- Merge binding regions for cell-lines (analysis) (5 revisions)
- Differential expression with DESeq (analysis) (5 revisions)
- IPS prediction (analysis) (5 revisions)
- Gene set enrichment analysis - select a classification (Gene table) (workflow) (5 revisions)
- Biouml.plugins.perfectosape (plugin) (5 revisions)
- Categories - GTRD (5 revisions)
- Gene Ontology (5 revisions)
- Cluster track (analysis) (5 revisions)
- Fastq format (5 revisions)
- Matching BioHub (5 revisions)
- TRRD (5 revisions)
- Distinct TF classes (analysis) (5 revisions)
- Data (host object) (5 revisions)
- Unspecified (reference type) (5 revisions)
- BioNetGen language format (5 revisions)
- Project (5 revisions)
- Acknowledgements (5 revisions)
- Install ExPASy (analysis) (4 revisions)
- Matrices - GTRD (4 revisions)
- Ru.biosoft.bsa.server (plugin) (4 revisions)
- Make meta tracks (analysis) (4 revisions)
- Compute differentially expressed genes using EBarrays (workflow) (4 revisions)
- Key Node Sensitivity Analysis (4 revisions)
- ChIP-Seq peaks clusterization (analysis) (4 revisions)
- Construct composite modules on tracks with keynodes (analysis) (4 revisions)
- PredictStartSites (analysis) (4 revisions)
- Diagram editing history (4 revisions)
- HumanSim (4 revisions)
- Join GTRD Tracks (analysis) (4 revisions)
- Cell - EndoNet (4 revisions)
- Count reads in transcripts (analysis) (4 revisions)
- BioUML overview (4 revisions)
- Biouml.plugins.download (plugin) (4 revisions)
- Kinetic parameters for COVID-19 models (4 revisions)
- Construct composite modules with keynodes (analysis) (4 revisions)
- Create database from diagram (analysis) (4 revisions)
- Long-term model of the CVS/Renal system (4 revisions)
- Analyze any DNA sequence for site enrichment (TRANSFAC(R)) (workflow) (4 revisions)
- Script viewpart (4 revisions)
- Orthogonal layout (4 revisions)
- Join GTRD clusters (analysis) (4 revisions)
- Apply CMA model to tracks (analysis) (4 revisions)
- Biouml.plugins.dropbox (plugin) (4 revisions)
- Probes - Agilent (4 revisions)
- Hash parameters (4 revisions)
- Matrix comparison (analysis) (4 revisions)
- Search binding sites (analysis) (4 revisions)
- Genes - Gene symbol (4 revisions)
- Ru.biosoft.fs (plugin) (4 revisions)
- Add genes from CMA (analysis) (4 revisions)
- Apply events (analysis) (4 revisions)
- Get transcripts track (analysis) (4 revisions)
- Filter duplicate rows (analysis) (4 revisions)
- Biouml.plugins.glycan (plugin) (4 revisions)
- Headless BioUML (4 revisions)
- Biouml.plugins.riboseqArticleResult (plugin) (4 revisions)
- ROC-curves in clusterized peaks (analysis) (4 revisions)
- Run a Workflow as Analysis (4 revisions)
- ComputeTranscriptProfile (analysis) (4 revisions)
- Prepare GTF annotation (analysis) (4 revisions)
- Rebuild search indexes (analysis) (4 revisions)
- Add reactants (analysis) (4 revisions)
- Compute differentially expressed genes using Limma (workflow) (4 revisions)
- Identify enriched motifs in promoters (GTRD) (workflow) (4 revisions)
- Remove overlapping sites (analysis) (4 revisions)
- ChIP-seq peaks - GTRD (4 revisions)
- Probes - Illumina (4 revisions)
- ROC-curves in grouped peaks (analysis) (4 revisions)
- Recalculate composite module score on new track (analysis) (4 revisions)
- Compute profile thresholds (analysis) (4 revisions)
- Template (extension point) (4 revisions)
- Sample population (analysis) (4 revisions)
- Site model (element type) (4 revisions)
- Generate dynamic model (analysis) (4 revisions)
- Hemodynamics model (file format) (4 revisions)
- ROC-curves in overlapped ChIP-Seq peaks (analysis) (4 revisions)
- Annotate diagram (analysis) (4 revisions)
- Genes - Unigene (4 revisions)
- Cluster by path (analysis) (4 revisions)
- Tests (4 revisions)
- Glycan structures (4 revisions)
- Open tracks for all TF (analysis) (4 revisions)
- Site models - GTRD (4 revisions)
- Biouml.plugins.agilent (plugin) (4 revisions)
- Summary on AUCs (analysis) (4 revisions)
- Biouml.plugins.googledrive (plugin) (4 revisions)
- Autosome.Ru (4 revisions)
- ChIPMunk (perspective) (4 revisions)
- Generic file (4 revisions)
