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  1. 1861
    por Panov, Alexandra, Harper, J Wade
    Publicado 2023
    “…AVAILABILITY AND IMPLEMENTATION: UniProtExtractR source code and user manual, including example files and troubleshooting, is available at https://github.com/alex-bio/UniProtExtractR. …”
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    UniProtExtractR: an app and R package for easily extracting protein-specific UniProtKB information and fine-tuning organelle resolution
  2. 1862
    “…AVAILABILITY AND IMPLEMENTATION: Source code is available at https://github.com/XinmengLiao/Open_MoA.…”
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    Open MoA: revealing the mechanism of action (MoA) based on network topology and hierarchy
  3. 1863
    “…AVAILABILITY AND IMPLEMENTATION: CENTRE’s open-source code is available at GitHub via https://github.com/slrvv/CENTRE.…”
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    CENTRE: a gradient boosting algorithm for Cell-type-specific ENhancer-Target pREdiction
  4. 1864
    “…AVAILABILITY AND IMPLEMENTATION: The source code of BELB is available at: https://github.com/sg-wbi/belb. …”
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    BELB: a biomedical entity linking benchmark
  5. 1865
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    EST-PAC a web package for EST annotation and protein sequence prediction
  6. 1866
    “…The Primer3Plus Perl source code is available under GPL license from SourceForge. …”
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    Primer3Plus, an enhanced web interface to Primer3
  7. 1867
    “…The score is implemented in the ASH structure alignment package, for which the source code and a web service are freely available from the PDBj website . …”
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    ASH structure alignment package: Sensitivity and selectivity in domain classification
  8. 1868
    “…Complete datasets, results and source code are available at the same site.…”
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    HoxPred: automated classification of Hox proteins using combinations of generalised profiles
  9. 1869
    “…The database is freely available on , and the text mining source code (Peptide::Pubmed) is freely available above as well as on CPAN ().…”
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    PepBank - a database of peptides based on sequence text mining and public peptide data sources
  10. 1870
    “…The software, including the source code, the clustering results for COG and CoryneRegNet, and all evaluation datasets are available at .…”
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    Large scale clustering of protein sequences with FORCE -A layout based heuristic for weighted cluster editing
  11. 1871
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    NFU-Enabled FASTA: moving bioinformatics applications onto wide area networks
  12. 1872
    “…Additional information on predictions, including the source code under the GNU Public License can be found at http://algorithmics.molgen.mpg.de/Static/Supplements/ProteinComplexes. …”
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    Identifying protein complexes directly from high-throughput TAP data with Markov random fields
  13. 1873
    “…The production server uses the Apache HTTP Server, Oracle Database and Perl application code. Source code is available to interested researchers under a no-cost license.…”
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    The Stanford Tissue Microarray Database
  14. 1874
    “…We also provide the changes to the Phrap source code enabling it to use only the reliable overlaps.…”
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    Improving Phrap-Based Assembly of the Rat Using “Reliable” Overlaps
  15. 1875
    “…The code base for this project was written primarily in the Octave programming language, but it is being ported to the R language and developed into a larger project for general genetic simulation called GenetSim . All of the source code that was used to generate the GAW 15 Problem 3 data is freely available for download at .…”
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    Genetic Analysis Workshop 15: simulation of a complex genetic model for rheumatoid arthritis in nuclear families including a dense SNP map with linkage disequilibrium between marker loci and trait loci
  16. 1876
    “…While we are no longer developing Fisher, we briefly consider the merits of the Fisher algorithm relative to snoGPS, which may be of use for workers considering pursuing a similar search strategy for the identification of small RNAs. The modified source code for Fisher is made available as supplementary material. …”
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    Fisher: a program for the detection of H/ACA snoRNAs using MFE secondary structure prediction and comparative genomics – assessment and update
  17. 1877
    “…All DBNs are implemented using the Graphical Models Toolkit. Source code for the models described here is available at http://noble.gs.washington.edu/proj/philius. …”
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    Transmembrane Topology and Signal Peptide Prediction Using Dynamic Bayesian Networks
  18. 1878
    “…All data and software including the source code, documentations, and development API are freely available under the GNU General Public License. …”
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    Genome Projector: zoomable genome map with multiple views
  19. 1879
    “…This is to our knowledge that the first report of the use of CRFs to predict post-translational modification sites in protein sequences. Availability: The source code of the implementation, called CRPhos, is available from http://www.ptools.ua.ac.be/CRPhos/ Contact: kris.laukens@ua.ac.be Suplementary Information: Supplementary data are available at http://www.ptools.ua.ac.be/CRPhos/…”
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    Prediction of kinase-specific phosphorylation sites using conditional random fields
  20. 1880
    “…Availability: The PASTAA source code as well as a corresponding web interface is freely available at http://trap.molgen.mpg.de Contact: roider@molgen.mpg.de Supplementary information: Supplementary data are available at Bioinformatics online.…”
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    PASTAA: identifying transcription factors associated with sets of co-regulated genes
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