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- BioUML wiki (471,019 views)
- Landing (209,745 views)
- GTRD (155,792 views)
- BioUML (106,492 views)
- Antimony (93,864 views)
- BioUML development history (91,973 views)
- Covid 19 (70,808 views)
- BioStore (55,675 views)
- BioUML development roadmap (55,570 views)
- BioUML user interface (55,336 views)
- Workflow (55,069 views)
- Diagram document (51,567 views)
- Features (46,125 views)
- Optimization examples (45,778 views)
- BioNetGen (43,976 views)
- Download (35,879 views)
- BioUML server installation (33,850 views)
- BioUML workbench (33,328 views)
- BioUML web edition (32,539 views)
- Simulation (29,331 views)
- BioUML Development Kit (27,510 views)
- GTRD statistics (25,702 views)
- Enrichment analysis (23,790 views)
- Creating Galaxy tool (23,708 views)
- Repository pane (23,141 views)
- Project (23,101 views)
- GTRD Workflow (22,991 views)
- GeneXplain (22,836 views)
- BioUML workbench installation (21,684 views)
- BioUML team (21,361 views)
- Databases (20,739 views)
- Information box (20,389 views)
- GeneNet (18,417 views)
- Correlation Analysis (18,409 views)
- Biomodels (18,004 views)
- Modular modeling (17,819 views)
- Presentations (17,411 views)
- CRC Analysis (16,876 views)
- Creasemarks analysis (16,623 views)
- Analysis method development (15,783 views)
- Hadoop (15,365 views)
- N-Glycan biosynthesis (15,154 views)
- Ru.biosoft.bsa (plugin) (14,900 views)
- MGL (14,804 views)
- Ensembl (14,719 views)
- BioUML exceptions (14,716 views)
- Tests (14,279 views)
- Visual modeling (13,713 views)
- PASS analysis (12,939 views)
- Flux balance analysis (12,722 views)
- Mass Conservation Analysis (12,600 views)
- Construct composite modules (analysis) (12,587 views)
- BioUML server (12,468 views)
- Galaxy installation (12,390 views)
- Diagram type (12,273 views)
- EMBL format (12,253 views)
- Perspective (12,249 views)
- Server ICT (12,202 views)
- Metabolic Control Analysis (12,173 views)
- R installation (11,901 views)
- Viewpart (11,611 views)
- BioUML format (11,592 views)
- Flux Balance Constraint (analysis) (11,547 views)
- Cross cost grid layout (11,461 views)
- Rbiouml (11,420 views)
- Agilent normalization (analysis) (11,198 views)
- CloudMan (11,171 views)
- Acknowledgements (11,157 views)
- Biopath (11,110 views)
- BED format (11,072 views)
- Hypergeometric analysis (11,062 views)
- Diagram editing history (11,009 views)
- Construct composite modules on tracks (analysis) (10,911 views)
- Motif quality analysis (10,798 views)
- Fasta format (10,731 views)
- Overall circulation model (10,631 views)
- Optimization problem (10,628 views)
- Quadratic Hill-climbing (analysis) (10,432 views)
- New BioStore (10,409 views)
- ChIPMunk (analysis) (10,348 views)
- GTRD comparison (10,207 views)
- Table document (10,199 views)
- Force directed layout (10,171 views)
- Functional classification (analysis) (10,127 views)
- Adaptive simulated annealing (analysis) (10,102 views)
- Effector search (analysis) (10,039 views)
- ChIPHorde (analysis) (10,008 views)
- Regulator search (analysis) (9,839 views)
- Defines.js (9,818 views)
- BioUML installation (9,817 views)
- Graph search (9,783 views)
- Hierarchical layout (9,753 views)
- BioBlend (9,688 views)
- Transplorer (9,607 views)
- Repository pane toolbar (9,487 views)
- Biouml.plugins.gtrd (plugin) (9,486 views)
- Lucene indexes creation (9,472 views)
- Meta analysis (9,458 views)
- Search tools (9,416 views)
- Reactions Analysis (9,375 views)
- Galaxy cloud (9,307 views)
- Gene Ontology (9,286 views)
- GenBank format (9,260 views)
- Copy folder (analysis) (9,198 views)
- Simulation analysis (9,196 views)
- Site search on track (analysis) (9,147 views)
- Install TRANSFAC(R) database (analysis) (9,094 views)
- Composite module to proteins (analysis) (9,061 views)
- GLBSOLVE (analysis) (9,008 views)
- Filter table (analysis) (8,993 views)
- Geneways (8,963 views)
- SIF (file format) (8,961 views)
- Sensitivity Analysis (8,913 views)
- Diagram (element type) (8,881 views)
- DiChIPMunk (analysis) (8,846 views)
- TRRD (8,844 views)
- Ru.biosoft.access (plugin) (8,837 views)
- DiChIPHorde (analysis) (8,774 views)
- Bowtie (analysis) (8,752 views)
- Gene features (analysis) (8,727 views)
- Apply state to diagram (analysis) (8,705 views)
- Compare site models (analysis) (8,693 views)
- Using R in BioUML (8,689 views)
- Compare Experiments (analysis) (8,683 views)
- Wiggle format (8,609 views)
- Affymetrix normalization (analysis) (8,592 views)
- BioNetGen language format (8,544 views)
- Gene Transfer Format (8,541 views)
- Breakdancer output (file format) (8,537 views)
- Virtual rat (8,478 views)
- Repository (8,462 views)
- Annotate track with genes (analysis) (8,441 views)
- Modular model of the human CVS v.1 (8,370 views)
- Descrete events (8,368 views)
- Image file (8,352 views)
- SBML (file format) (8,337 views)
- Add expression values (analysis) (8,294 views)
- Servers (8,290 views)
- CNVnator genotype output (file format) (8,289 views)
- Chromosome enrichment (analysis) (8,215 views)
- Using Galaxy in BioUML (8,182 views)
- Preprocess raw reads (analysis) (8,166 views)
- Create DAS track (analysis) (8,139 views)
- Polynomial Regression analysis (8,138 views)
- Gene set to track (analysis) (8,137 views)
- Convert table to track (analysis) (8,078 views)
- Create IPS model (analysis) (8,070 views)
- ChIP-seq peak profile (analysis) (8,063 views)
- Cluster analysis by K-means (analysis) (8,061 views)
- Ru.biosoft.proteome (plugin) (8,022 views)
- Cluster by shortest path (analysis) (8,018 views)
- Annotate table (analysis) (8,017 views)
- GeneXplain GmbH (7,997 views)
- Read counter (analysis) (7,980 views)
- Convert table (analysis) (7,973 views)
- Building Flux Balance DataTable (analysis) (7,971 views)
- HTML file (7,898 views)
- Ensembl installation (7,896 views)
- Genome coverage (analysis) (7,831 views)
- Text file (7,822 views)
- Export element (analysis) (7,750 views)
- Join tracks (analysis) (7,742 views)
- General Feature Format (7,739 views)
- Change profile cutoffs (analysis) (7,708 views)
- MicroRNA aligner (analysis) (7,693 views)
- Evolution strategy (SRES) (analysis) (7,681 views)
- Cellular genetic algorithm (analysis) (7,680 views)
- Ru.biosoft.analysis (plugin) (7,679 views)
- Analysis of Cis-Regulatory Modules (analysis) (7,601 views)
- Interval format (7,600 views)
- Grid layout (7,588 views)
- Tools Comparison 2022 (7,571 views)
- Create folder (analysis) (7,552 views)
- Linear Shifted Model (analysis) (7,550 views)
- Institute of Systems Biology (7,541 views)
- Particle swarm optimization (analysis) (7,541 views)
- Process track with sites (analysis) (7,536 views)
- Filter one track by another (analysis) (7,496 views)
- Biouml.plugins.ensembl (plugin) (7,466 views)
- Install TRANSPATH(R) database (analysis) (7,454 views)
- Disease - MeSH (7,390 views)
- Construct IPS CisModule (analysis) (7,375 views)
- Convert site models to proteins (analysis) (7,375 views)
- Extend network (analysis) (7,315 views)
- Biouml.plugins.bionetgen (plugin) (7,304 views)
- Create profile from gene table (analysis) (7,270 views)
- Biouml.plugins.cma (plugin) (7,250 views)
- Biouml.workbench (plugin) (7,238 views)
- GO installation (7,237 views)
- Join several tables (analysis) (7,206 views)
- Convert table via homology (analysis) (7,196 views)
- Filter track by condition (analysis) (7,176 views)
- SED-ML file (7,172 views)
- Heterozygous site caller (analysis) (7,166 views)
- Gene overlap statistics (analysis) (7,133 views)
- Create Match model (analysis) (7,130 views)
- Generic file (7,105 views)
- Join table (analysis) (7,101 views)
- Ru.biosoft.table (plugin) (7,026 views)
- Diagram view part (extension point) (6,982 views)
- Nonlinear Model (analysis) (6,960 views)
- VCF format (6,903 views)
- Create weight matrix model (analysis) (6,859 views)
- SDE model (analysis) (6,836 views)
- Biouml.plugins.bindingregions (plugin) (6,799 views)
- Gene expression prediction (6,748 views)
- SAM or BAM alignment file (6,736 views)
- Merge track statistics (analysis) (6,724 views)
- Steady State (analysis) (6,707 views)
- HumanSim (6,701 views)
- Orthogonal layout (6,691 views)
- Fastq format (6,663 views)
- Biouml.plugins.bkl (plugin) (6,656 views)
- Matching BioHub (6,646 views)
- Biouml.plugins.cellml (plugin) (6,584 views)
- Save hits (analysis) (6,520 views)
- SNP matching (analysis) (6,507 views)
- Biouml.plugins.chipmunk (plugin) (6,458 views)
- Site distribution (analysis) (6,444 views)
- Genes - GenBank (6,437 views)
- Venn diagrams (analysis) (6,430 views)
- IPS motif discovery (analysis) (6,419 views)
- 1-dimensional arterial tree model (6,393 views)
- Illumina normalization (analysis) (6,392 views)
- Modular model of the human CVS v.2 (6,341 views)
- Ru.biosoft.galaxy (plugin) (6,329 views)
- Ru.biosoft.server (plugin) (6,313 views)
- Mutation effect (analysis) (6,289 views)
- Analyze promoters (TRANSFAC(R)) (workflow) (6,267 views)
- Biouml.plugins.pass (plugin) (6,205 views)
- Script viewpart (6,169 views)
- Image (element type) (6,165 views)
- Fold-Change calculation (analysis) (6,119 views)
- Genes - Ensembl (6,097 views)
- CloudBioLinux (6,093 views)
- Biouml.plugins.creasemarks (plugin) (6,081 views)
- Ru.biosoft.workbench (plugin) (6,072 views)
- Biouml.plugins.das (plugin) (6,061 views)
- Run MACS 1.3.7 on ChiP-Seq (analysis) (6,058 views)
- Save network (analysis) (6,053 views)
- Join diagrams (analysis) (6,038 views)
- JVODE (6,015 views)
- Method (extension point) (6,006 views)
- Upload from FTP (analysis) (5,976 views)
- SDF file (5,975 views)
- Biouml.plugins.enrichment (plugin) (5,963 views)
- Collaborative diagram editing (5,949 views)
- Biouml.plugins.fbc (plugin) (5,899 views)
- Biouml.plugins.endonet (plugin) (5,894 views)
- Proteins - IPI (5,846 views)
- Genes - Entrez (5,825 views)
- TRANSFAC matrices format (5,804 views)
- Biouml.plugins.sbml (plugin) (5,780 views)
- Biouml.plugins.transfac (plugin) (5,780 views)
- Biouml.plugins.modelreduction (plugin) (5,778 views)
- Track statistics (analysis) (5,744 views)
- Biouml.plugins.reactome (plugin) (5,736 views)
- SISSRs output (file format) (5,730 views)
- Map to Transpath (analysis) (5,716 views)
- Host object (extension point) (5,687 views)
- Biouml.plugins.go (plugin) (5,659 views)
- GinSim (file format) (5,650 views)
- Ru.biosoft.graph (plugin) (5,597 views)
- to user communication (5,551 views)
- Ru.biosoft.plugins.jri (plugin) (5,533 views)
- Biouml.plugins.bowtie (plugin) (5,529 views)
- Pindel output (file format) (5,518 views)
- Track coverage (analysis) (5,510 views)
- General control panel (5,491 views)
- Binding regions summary (analysis) (5,473 views)
- CellML (file format) (5,473 views)
- Proteins - UniProt (5,447 views)
- Export (extension point) (5,442 views)
- Tabular (file format) (5,410 views)
- Ru.biosoft.analysis.optimization (plugin) (5,334 views)
- Biouml.plugins.keynodes (plugin) (5,323 views)
- Biouml.plugins.obo (plugin) (5,288 views)
- Visualize results (analysis) (5,280 views)
- Stoichiometric Matrix (analysis) (5,279 views)
- Site search on gene set (analysis) (5,273 views)
- Create matrix by mixture of normal components (analysis) (5,262 views)
- Biouml.plugins.chemoinformatics (plugin) (5,239 views)
- Biouml.plugins.sbw (plugin) (5,220 views)
- Biouml.plugins.optimization (plugin) (5,215 views)
- ChIP-Seq characteristics distribution (analysis) (5,194 views)
- Run MACS 1.4.0 on ChiP-Seq (analysis) (5,185 views)
- Site counts in repeats (analysis) (5,166 views)
- Reference type (5,163 views)
- Document pane (5,137 views)
- Databases installation (5,120 views)
- Biouml.plugins.transpath (plugin) (5,100 views)
- Euler (5,093 views)
- SBML(CellDesigner) (file format) (5,070 views)
- Fastq mcf (5,062 views)
- Biouml.plugins.sedml (plugin) (5,056 views)
- Genome browser (5,056 views)
- Common class (extension point) (5,049 views)
- Classification hub (5,046 views)
- Categories - GTRD (5,010 views)
- Tools Comparison (4,985 views)
- Count olig frequencies (analysis) (4,956 views)
- Site search result optimization (analysis) (4,954 views)
- Track to gene set (analysis) (4,948 views)
- Ru.biosoft.server.servlets (plugin) (4,931 views)
- Autosome.Ru (4,913 views)
- Classification analysis (4,897 views)
- Ru.biosoft.templates (plugin) (4,890 views)
- Proteins - Ensembl (4,887 views)
- Reactome (4,878 views)
- Ru.biosoft.plugins.javascript (plugin) (4,878 views)
- Biouml.plugins.sabiork (plugin) (4,845 views)
- Matrix (element type) (4,845 views)
- Biouml.plugins.agentmodeling (plugin) (4,836 views)
- Biouml.plugins.simulation (plugin) (4,833 views)
- Up and Down Identification (analysis) (4,833 views)
- Biouml.plugins.geneways (plugin) (4,821 views)
- IPS ROC-curves (analysis) (4,821 views)
- Proteins - Reactome (4,821 views)
- Proteins - RefSeq (4,817 views)
- Biouml.plugins.microarray (plugin) (4,810 views)
- Biouml.plugins.graphml (plugin) (4,805 views)
- Transcripts - Ensembl (4,798 views)
- Locations of best sites (analysis) (4,762 views)
- Biouml.plugins.ginsim (plugin) (4,752 views)
- Parameter identifiability example (4,747 views)
- Biouml.plugins.genemodels (plugin) (4,744 views)
- Biouml.plugins.gne (plugin) (4,742 views)
- Biouml.plugins.users (plugin) (4,735 views)
- Biouml.plugins.kegg (plugin) (4,702 views)
- KeyNodes hub (4,700 views)
- Ru.biosoft.works (plugin) (4,697 views)
- Biouml.plugins.illumina (plugin) (4,696 views)
- Validate Experiments (analysis) (4,688 views)
- Mixture of normal components (analysis) (4,680 views)
- Biouml.plugins.expression (plugin) (4,664 views)
- Biouml.plugins.matlab (plugin) (4,664 views)
- Correlations of best sites (analysis) (4,663 views)
- ChIP-seq peaks - GTRD (4,657 views)
- Cell type specific TFBS prediction (4,647 views)
- TRANSFAC profile (file format) (4,633 views)
- Ru.biosoft.access.search (plugin) (4,628 views)
- Table (element type) (4,628 views)
- Cell - EndoNet (4,608 views)
- GC island finder (analysis) (4,608 views)
- Ru.biosoft.server.tomcat (plugin) (4,591 views)
- Probes - Affymetrix (4,586 views)
- Hash parameters (4,548 views)
- Biouml.plugins.uniprot (plugin) (4,524 views)
- Biouml.plugins.simulation-test (plugin) (4,514 views)
- Biouml.workbench.graph (plugin) (4,493 views)
- Site search summary (analysis) (4,493 views)
- Com.developmentontheedge.util (plugin) (4,489 views)
- Ru.biosoft.services (plugin) (4,482 views)
- Ru.biosoft.math (plugin) (4,479 views)
- Cluster analysis (4,473 views)
- Biouml.plugins.psimi (plugin) (4,455 views)
- Analyze promoters (GTRD) (workflow) (4,449 views)
- Biouml.plugins.lucene (plugin) (4,448 views)
- Biouml.plugins.wiki (plugin) (4,448 views)
- Distinct TF classes (analysis) (4,433 views)
- Select table columns (analysis) (4,418 views)
- Biouml.plugins.biopax (plugin) (4,417 views)
- Biouml.plugins.softberry (plugin) (4,414 views)
- Biouml.plugins.test (plugin) (4,408 views)
- Biouml.plugins.svg (plugin) (4,390 views)
- Genes - Unigene (4,390 views)
- BioGears (4,386 views)
- Find master regulators for multiple gene sets (TRANSPATH(R)) (workflow) (4,374 views)
- Biouml.plugins.proteinmodel (plugin) (4,367 views)
- ZIP-archive (file format) (4,361 views)
- Biouml.plugins.hemodynamics (plugin) (4,359 views)
- Biouml.plugins.gxl (plugin) (4,352 views)
- Biouml.plugins.research (plugin) (4,351 views)
- Cis-module identification (analysis) (4,336 views)
- Element type (4,332 views)
- ChIP-Seq - Identify TF binding sites on peaks (TRANSFAC(R)) (workflow) (4,323 views)
- BioHub (4,306 views)
- Biouml.plugins.sbgn (plugin) (4,302 views)
- BioUML - systems biology (4,291 views)
- Proteins - GenBank (4,289 views)
- Gathering genome statistics (analysis) (4,288 views)
- Pathways - Transpath (4,282 views)
- Ru.biosoft.treetable (plugin) (4,282 views)
- Long-term model of the CVS/Renal system (4,278 views)
- Text output file generated by R (file format) (4,251 views)
- Biouml.plugins.genenet (plugin) (4,213 views)
- Varscan output (file format) (4,206 views)
- Biouml.plugins.server (plugin) (4,191 views)
- Extract ribosomal RNA (analysis) (4,189 views)
- Probes - Agilent (4,163 views)
- Pathways - Reactome (4,143 views)
- Research diagram (4,141 views)
- Hormone - EndoNet (4,140 views)
- ChIP-seq Analysis (4,126 views)
- Biouml.plugins.expasy (plugin) (4,102 views)
- Isoforms - GTRD (4,093 views)
- Glycan structures (4,080 views)
- Genes - Gene symbol (4,073 views)
- Cluster track (analysis) (4,063 views)
- Biouml.plugins.stochastic (plugin) (4,051 views)
- Compute differentially expressed genes using Hypergeometric test (Affymetrix probes) (workflow) (4,043 views)
- ROC curves for best sites union (analysis) (4,029 views)
- Gene set enrichment analysis (Illumina probes) (workflow) (4,021 views)
- Softberry, Inc. (4,021 views)
- Non-merged ChIP-Seq tracks summary (analysis) (4,018 views)
- VAT output (file format) (4,013 views)
- Biouml.plugins.chebi (plugin) (4,009 views)
- Template (extension point) (4,006 views)
- Com.developmentontheedge.server (plugin) (3,994 views)
- Transcripts - RefSeq (3,989 views)
- ChIP-Seq - Identify TF binding sites on peaks for multiple datasets (TRANSFAC(R)) (workflow) (3,987 views)
- Biouml.plugins.miriam (plugin) (3,974 views)
- File (element type) (3,970 views)
- Add reactants (analysis) (3,955 views)
- Site model (element type) (3,944 views)
- Mapping to ontologies for multiple gene sets (TRANSPATH(R)) (workflow) (3,936 views)
- Common and IPS scores correlation (analysis) (3,932 views)
- BioPAX file (3,919 views)
- Merge binding regions for cell-lines (analysis) (3,914 views)
- Biouml.plugins.reactome.biohub (plugin) (3,908 views)
- Categories - ExPASy (3,895 views)
- Compute differentially expressed genes (Affymetrix probes) (workflow) (3,891 views)
- Compute differentially expressed genes using Hypergeometric test (Illumina probes) (workflow) (3,889 views)
- DDMoRe consortium (3,886 views)
- Matrices - GTRD (3,864 views)
- Biouml.plugins.pharm (plugin) (3,862 views)
- Mapping to ontologies for multiple gene sets (workflow) (3,856 views)
- Biouml.plugins.perfectosape (plugin) (3,848 views)
- Analyze SNP list (TRANSFAC(R)) (workflow) (3,841 views)
- Site models - GTRD (3,830 views)
- Mapping to ontologies (TRANSPATH(R)) (workflow) (3,828 views)
- Server administrator (3,816 views)
- IPS prediction (analysis) (3,807 views)
- Method description HTML file (3,766 views)
- Virtual physiological human (3,763 views)
- Tree-table (element type) (3,758 views)
- Biouml.plugins.mirbase (plugin) (3,752 views)
- Gene set enrichment analysis (Affymetrix probes) (workflow) (3,735 views)
- Biouml.plugins.antimony (plugin) (3,730 views)
- Track (element type) (3,722 views)
- Compute differentially expressed genes (Agilent probes) (workflow) (3,721 views)
- Perspective (extension point) (3,721 views)
- Analyze SNP list (GTRD) (workflow) (3,708 views)
- Sequence (element type) (3,700 views)
- Contributors (3,696 views)
- Analysis of Binding Regions (analysis) (3,690 views)
- Install ExPASy (analysis) (3,683 views)
- Apply CMA model to tracks (analysis) (3,662 views)
- Tutorials (3,656 views)
- Probes - Illumina (3,621 views)
- ChIP-Seq - Identify composite modules on peaks (TRANSFAC(R)) (workflow) (3,610 views)
- Annotate diagram (analysis) (3,609 views)
- Biouml.plugins.affymetrix (plugin) (3,601 views)
- Beans (extension point) (3,600 views)
- Compute differentially expressed genes (Illumina probes) (workflow) (3,588 views)
- ChIP-Seq peaks clusterization (analysis) (3,579 views)
- Matrices - TRANSFAC (3,577 views)
- Biouml.plugins.node (plugin) (3,574 views)
- Quasi-Steady-State Analysis (3,566 views)
- Data (host object) (3,565 views)
- Compute differentially expressed genes using Hypergeometric test (Agilent probes) (workflow) (3,525 views)
- Sensitivity analysis example (3,513 views)
- Diagram graph compare analysis (3,479 views)
- Product (3,472 views)
- Expression mapping (3,448 views)
- Short term model of the heart output regulation (3,444 views)
- ChIP-Seq - Identify and classify target genes (workflow) (3,434 views)
- Text (element type) (3,422 views)
- Biouml.plugins.riboseq (plugin) (3,420 views)
- Reference type (extension point) (3,401 views)
- Antimony (file format) (3,377 views)
- Convert files to tracks (analysis) (3,377 views)
- Find common effectors in networks (GeneWays) (workflow) (3,376 views)
- Virtual biology (3,373 views)
- Moved class (extension point) (3,365 views)
- ArticleComparator (analysis) (3,360 views)
- Identical best site ROC-curves (analysis) (3,351 views)
- Plugin development (3,345 views)
- Transformer (extension point) (3,338 views)
- BuildASiteOffsetTable (analysis) (3,322 views)
- Join GTRD Tracks (analysis) (3,322 views)
- Genes - BKL (3,311 views)
- Probes - Affymetrix ST (3,309 views)
- BuildProfileModel (analysis) (3,308 views)
- Genes - Transpath (3,308 views)
- Application log (viewpart) (3,290 views)
- RADAU V (3,288 views)
- Color space to nucleotide (analysis) (3,287 views)
- PharmML (3,272 views)
- Extract RNA length (analysis) (3,262 views)
- ChIPMunk (perspective) (3,247 views)
- Biouml.plugins.agilent (plugin) (3,239 views)
- Genes - Illumina (3,237 views)
- ComputeTranscriptProfile (analysis) (3,233 views)
- Blast alignment coverage (analysis) (3,228 views)
- SEDX archive (file format) (3,225 views)
- ChIP experiment - GTRD (3,212 views)
- Look and feel (extension point) (3,207 views)
- Tree-table document (3,202 views)
- Drugs - DrugBank (3,195 views)
