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- Find 3 master regulators in networks with context genes (TRANSPATH(R)) (workflow) (2 revisions)
- Normalize Illumina experiment and control (analysis) (2 revisions)
- Site Size Filtering (analysis) (2 revisions)
- Substances - DrugBank (2 revisions)
- Compare analysis results (analysis) (2 revisions)
- Analyze any DNA sequence (TRANSFAC(R)) (workflow) (2 revisions)
- Track (element type) (2 revisions)
- BioPAX file (2 revisions)
- Quantification of RNA-seq in FASTQ format for mouse mm9 single end (workflow) (2 revisions)
- Create profile from matrix library (analysis) (2 revisions)
- LRPath (analysis) (2 revisions)
- Enzymes - ExPASy (2 revisions)
- Biouml.plugins.seek (plugin) (2 revisions)
- Outer join (analysis) (2 revisions)
- Sites Motifs Analysis (2 revisions)
- Systems biology - model import 02 (2 revisions)
- RNA-Seq analysis (2 revisions)
- Cytoscape network format (2 revisions)
- Research diagram (2 revisions)
- Look and feel (extension point) (2 revisions)
- Biouml.plugins.mirprom (plugin) (2 revisions)
- Network (host object) (2 revisions)
- Colon cancer signature (analysis) (2 revisions)
- Probes - Affymetrix HG-U133+ PM (2 revisions)
- Create custom project (analysis) (2 revisions)
- Identify enriched composite modules in promoters (TRANSFAC(R)) (workflow) (2 revisions)
- Data matrix operations (analysis) (2 revisions)
- Element type (2 revisions)
- ModelReduction (host object) (2 revisions)
- Calculate CMA regulation (analysis) (2 revisions)
- Oligonucleotides in sequence samples (analysis) (2 revisions)
- Check Workflow consistency (analysis) (2 revisions)
- Substances - DrugBank (geneXplain) (2 revisions)
- General control panel (2 revisions)
- Probes - Agilent Tox Array (2 revisions)
- Remote application client (analysis) (2 revisions)
- Enzymes - KEGG (2 revisions)
- Search for enriched TFBSs (genes) (analysis) (2 revisions)
- Find master regulators in mutated network (TRANSPATH(R)) (workflow) (2 revisions)
- Sites Open Chromatin Statistics (analysis) (2 revisions)
- Clean up SQL database (analysis) (2 revisions)
- Add calculated column (analysis) (2 revisions)
- Systems biology - model layout (2 revisions)
- IPS-scores in SNPs (analysis) (2 revisions)
- DAE Models examples (2 revisions)
- Document pane (2 revisions)
- Matrix derivation (analysis) (2 revisions)
- Probes - Affymetrix HTA-2-0 (2 revisions)
- BPMN (2 revisions)
- Proteins - Transpath isogroups (2 revisions)
- Find common effectors for multiple gene sets (TRANSPATH(R)) (workflow) (2 revisions)
- Calculate TFs regulatory score (analysis) (2 revisions)
- Check quotas (analysis) (2 revisions)
- Substances - KEGG (2 revisions)
- Generate Table From JSON (analysis) (2 revisions)
- Heatmap (analysis) (2 revisions)
- Create random track (analysis) (2 revisions)
- Search for enriched TFBSs (tracks) (analysis) (2 revisions)
- Find master regulators in mutated network (workflow) (2 revisions)
- Multivariate regression analysis (2 revisions)
- Sites Open Chromatin Statistics For Folders (analysis) (2 revisions)
- Verify Condition for Table (analysis) (2 revisions)
- Run analysis (2 revisions)
- Flux Balance Analysis (workflow) (2 revisions)
- Node (host object) (2 revisions)
- Stem-loop-miRNA - miRBase (2 revisions)
- Probes - Affymetrix HuGene-2-0-st (2 revisions)
- Context item (extension point) (2 revisions)
- GlycanR (analysis) (2 revisions)
- Filter SPAdes output (2 revisions)
- Model analysis (2 revisions)
- Open regulated genes table (analysis) (2 revisions)
- Chipmunk (host object) (2 revisions)
- Substances - Pharmaceutical compounds (2 revisions)
- Analyze miRNA target enrichment (analysis) (2 revisions)
- Convert table to VCF track (analysis) (2 revisions)
- Search for self-regulating transcription factors (TRANSFAC(R) and TRANSPATH(R)) (workflow) (2 revisions)
- Multivariate sample analysis (2 revisions)
- PCA (analysis) (2 revisions)
- Sites genome location (analysis) (2 revisions)
- TF binding sites prediction in genome or track (analysis) (2 revisions)
- Coverage Profiles Cutoff (analysis) (2 revisions)
- DNase-seq Group and Profile Generation (Previous version) (analysis) (2 revisions)
- Intersect tables (analysis) (2 revisions)
- MEALR (tracks) (analysis) (2 revisions)
- Mature-miRNA - miRBase (2 revisions)
- Probes - Affymetrix HuGene-2-1-st (2 revisions)
- Identify enriched motifs in tissue specific promoters (TRANSFAC(R)) (workflow) (2 revisions)
- Wizard page (extension point) (2 revisions)
- Default (perspective) (2 revisions)
- Enriched upstream analysis (TRANSFAC(R) and TRANSPATH(R)) (workflow) (2 revisions)
- Calculate weighted mutation score (analysis) (2 revisions)
- Simulate Population (analysis) (2 revisions)
- ChromatinInfo table creation (analysis) (2 revisions)
- GWAS format (2 revisions)
- Product (2 revisions)
- Create tissue-specific promoter track (analysis) (2 revisions)
- Import from BC Platform (analysis) (2 revisions)
- Bioumlsim (2 revisions)
- Search regulated genes (analysis) (2 revisions)
- Sites genome location for folders (analysis) (2 revisions)
- Geneways (2 revisions)
- Transform track to table (analysis) (2 revisions)
- DNase-seq Group and Profile Generation (analysis) (2 revisions)
- Intersect tracks (analysis) (2 revisions)
- Methylation probes - Illumina (2 revisions)
- Probes - Affymetrix RaGene-2-0-st (2 revisions)
- Text (element type) (2 revisions)
- Univariate sample analysis (2 revisions)
- Identify enriched motifs in tissue specific tracks (TRANSFAC(R)) (workflow) (2 revisions)
- Join two tables (analysis) (2 revisions)
- Ru.biosoft.jobcontrol (plugin) (2 revisions)
- Mapping to ontologies (HumanPSD(TM)) (workflow) (2 revisions)
- Find enriched TF binding sites in variation sites (TRANSFAC(R)) (workflow) (2 revisions)
- Categories (reference type) (2 revisions)
- Galaxy (2 revisions)
- Compute coverage by window (analysis) (2 revisions)
- Profile (element type) (2 revisions)
- Using Galaxy in BioUML (2 revisions)
- Create transcript region track (analysis) (2 revisions)
- Import from TranSMART (analysis) (2 revisions)
- Limma (analysis) (2 revisions)
- Biouml.plugins.machinelearning (plugin) (2 revisions)
- Find master regulators in networks with context genes (TRANSPATH(R)) (workflow) (2 revisions)
- Affymetrix CEL file (2 revisions)
- Prepare target genes by expression (analysis) (2 revisions)
- Proteins - NCBI (2 revisions)
- Transformer (extension point) (2 revisions)
- IPython format (2 revisions)
- R (host object) (2 revisions)
- MSAT (analysis) (2 revisions)
- Fast table filter (analysis) (2 revisions)
- MiRNA - miRBase (2 revisions)
- COVID-19 parameters for Lung (2 revisions)
- Focused upstream analysis (TRANSFAC(R) and TRANSPATH(R)) (workflow) (2 revisions)
- Gene set enrichment analysis HumanPSD (Affymetrix probes) (workflow) (2 revisions)
- Univariate samples analysis (2 revisions)
- Create matrix logo (analysis) (2 revisions)
- Identify enriched motifs in tracks (TRANSFAC(R)) (workflow) (2 revisions)
- Reduce track (analysis) (2 revisions)
- Sbml (host object) (2 revisions)
- Categories - BKL (2 revisions)
- SimulationEngine (host object) (2 revisions)
- GTEX Mutation effect on sites (analysis) (2 revisions)
- Optimization (host object) (2 revisions)
- Galaxy (host object) (2 revisions)
- Compute coverage profile (analysis) (2 revisions)
- Profiles Statistics (analysis) (2 revisions)
- Convert tracks to VCF (analysis) (2 revisions)
- BioUML Simulation result (file format) (2 revisions)
- Using R in BioUML (2 revisions)
- Select files from folder (analysis) (2 revisions)
- ChIP-Seq - Identify and classify target genes (HumanPSD(TM)) (workflow) (2 revisions)
- Softberry (perspective) (2 revisions)
- Biouml.plugins.pathfinder (plugin) (2 revisions)
- MiRNA feed forward loops (analysis) (2 revisions)
- COVID-19 parameters for Nasopharynx (2 revisions)
- Normalization quality plots (analysis) (2 revisions)
- Perfectosape (host object) (2 revisions)
- Stub process file (analysis) (2 revisions)
- Gene set enrichment analysis HumanPSD (Agilent probes) (workflow) (2 revisions)
- Probes - Affymetrix miRNA-1-0 (2 revisions)
- BioGears (2 revisions)
- KEGG (reference type) (2 revisions)
- Mapping to ontologies and comparison for two gene sets (HumanPSD(TM)) (workflow) (2 revisions)
- Sbw (host object) (2 revisions)
- Galaxy admin (2 revisions)
- Systems biology - basic model editing (2 revisions)
- Biouml.plugins.metabolics (plugin) (2 revisions)
- Mutation effect on sites advanced (analysis) (2 revisions)
- Agilent microarray file (2 revisions)
- Preprocessor (extension point) (2 revisions)
- TRRD viewer (2 revisions - redirect page)
- Genome browser (2 revisions)
- Virtual physiological human (2 revisions)
- Das (host object) (2 revisions)
- EBarrays (analysis) (2 revisions)
- Fastq compressed (file format) (2 revisions)
- Filtering experiments by cell types (analysis) (2 revisions)
- Substances (reference type) (2 revisions)
- Gene set enrichment analysis HumanPSD (Gene table) (workflow) (2 revisions)
- Probes - Affymetrix miRNA-2-0 (2 revisions)
- Guided linear model analysis (2 revisions)
- BioHub (2 revisions)
- Create per TF flat files (analysis) (2 revisions)
- Illumina microarray file (2 revisions)
- Ensembl (host object) (2 revisions)
- Mapping to ontologies and comparison for two gene sets (TRANSPATH(R)) (workflow) (2 revisions)
- SNP regions in genome (analysis) (2 revisions)
- GTRD (perspective) (2 revisions)
- Cistrom construction (analysis) (2 revisions)
- AUC Estimation For meta-cluster track (analysis) (2 revisions)
- Population generation (analysis) (2 revisions)
- Cross-species identification of enriched motifs in promoters, using orthologue information (TRANSFAC(R)) (workflow) (2 revisions)
- Export master track (analysis) (2 revisions)
- Find regulatory regions with mutations (analysis) (2 revisions)
- Mutations to genes with weights (analysis) (2 revisions)
- Tree-table (element type) (2 revisions)
- Servers (2 revisions)
- Normalize Affymetrix experiment and control (analysis) (2 revisions)
- ChIP experiment - GTRD (2 revisions)
- Substances - CAS (2 revisions)
- Gene set enrichment analysis HumanPSD (Illumina probes) (workflow) (2 revisions)
- Probes - Affymetrix miRNA-3-0 (2 revisions)
- Update master track (analysis) (2 revisions)
- Create profile from CMA model (analysis) (2 revisions)
- Mapping to ontologies for multiple gene sets (HumanPSD(TM)) (workflow) (2 revisions)
- Categories - Gene ontology (2 revisions)
- Cross-species mapping to ontologies, using orthologue information (HumanPSD(TM)) (workflow) (2 revisions)
- Install HumanPSD(TM) database (analysis) (2 revisions)
- Export metadata json (analysis) (2 revisions)
- Table (host object) (2 revisions)
- Tree-table document (2 revisions)
- Identify composite modules in promoters (TRANSFAC(R)) (workflow) (2 revisions)
- Reactome (2 revisions)
- Find 10 master regulators in networks (TRANSPATH(R)) (workflow) (2 revisions)
- Microarray (host object) (2 revisions)
- Service (extension point) (2 revisions)
- Normalize Agilent experiment and control (analysis) (2 revisions)
- Site Profile Filtering (analysis) (2 revisions)
- PharmML (2 revisions)
- Probes - Affymetrix miRNA-4-0 (2 revisions)
- TrackInfo table creation (analysis) (2 revisions)
- Quantification of RNA-seq in BAM format for mouse mm9 single end (workflow) (2 revisions)
- Cdk (host object) (2 revisions)
- Galaxy method (element type) (2 revisions)
- Variance filter (analysis) (2 revisions)
- Biouml.plugins.cytoscape (plugin) (2 revisions)
- Export per cell clusters (analysis) (2 revisions)
- Find target genes (analysis) (2 revisions)
- Pathways (reference type) (2 revisions)
- Construct composite modules on tracks (without site search) (analysis) (2 revisions)
- Get miRNA targets (analysis) (2 revisions)
- Ru.biosoft.exception (plugin) (2 revisions)
- Set initial values from simulation result (analysis) (3 revisions)
- Pharmaceutical Compounds analysis (3 revisions)
- GTRD analysis advanced (analysis) (3 revisions)
- Classification hub (3 revisions)
- Prediction of miRNA binding sites (workflow) (3 revisions)
- Antimony (file format) (3 revisions)
- Proteins - EndoNet (3 revisions)
- Transcripts - Illumina (3 revisions)
- Hypergeometric analysis for multiple inputs (workflow) (3 revisions)
- BioUML installation (3 revisions)
- SelectionTrustClusters (analysis) (3 revisions)
- Find unmappable regions (analysis) (3 revisions)
- Table imputation (analysis) (3 revisions)
- Proteins - Transpath complexes (3 revisions)
- Reads to matrices (workflow) (3 revisions)
- SRA to FASTQ (workflow) (3 revisions)
