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  1. 2801
    “…Further, we revealed, for the first time, that the proposed model can represent obvious motif distribution across Kcr sites in non-histone proteins. The source code (in Python) is publicly available at https://github.com/Jhabindra-bioinfo/CapsNh-Kcr.…”
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    CapsNh-Kcr: Capsule network-based prediction of lysine crotonylation sites in human non-histone proteins
  2. 2802
    “…AVAILABILITYAND IMPLEMENTATION: The source code and data are available at https://github.com/Azra3lzz/LaGAT. …”
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    LaGAT: link-aware graph attention network for drug–drug interaction prediction
  3. 2803
    “…Availability and Implementation. R Source code is available at https://github.com/HaoChen1994/Seizure-Prediction.…”
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    An Explainable Statistical Method for Seizure Prediction Using Brain Functional Connectivity from EEG
  4. 2804
    “…We release qNABpredict as a convenient webserver and source code at http://biomine.cs.vcu.edu/servers/qNABpredict/. …”
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    qNABpredict: Quick, accurate, and taxonomy‐aware sequence‐based prediction of content of nucleic acid binding amino acids
  5. 2805
    “…AVAILABILITY AND IMPLEMENTATION: PEMT is an open-source Python tool and its source code and PyPi package are available at https://github.com/Fraunhofer-ITMP/PEMT and https://pypi.org/project/PEMT/, respectively. …”
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    PEMT: a patent enrichment tool for drug discovery
  6. 2806
    por Garrison, Erik, Guarracino, Andrea
    Publicado 2022
    “…AVAILABILITY AND IMPLEMENTATION: seqwish is published as free software under the MIT open source license. Source code and documentation are available at https://github.com/ekg/seqwish. seqwish can be installed via Bioconda https://bioconda.github.io/recipes/seqwish/README.html or GNU Guix https://github.com/ekg/guix-genomics/blob/master/seqwish.scm.…”
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    Unbiased pangenome graphs
  7. 2807
    “…AVAILABILITY AND IMPLEMENTATION: Source code and dataset are available at https://github.com/Dalei-Dalei/MEOMI/ and http://122.205.95.139/MEOMI/. …”
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    An approach of gene regulatory network construction using mixed entropy optimizing context-related likelihood mutual information
  8. 2808
    “…AVAILABILITY AND IMPLEMENTATION: Data used in this study are available at https://www.kaggle.com/competitions/human-protein-atlas-image-classification/data. Source code is available at https://github.com/priyarana/Protein-subcellular-localisation-method. …”
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    Imbalanced classification for protein subcellular localization with multilabel oversampling
  9. 2809
    “…AVAILABILITY AND IMPLEMENTATION: The DeepCellEss web server is available at http://csuligroup.com:8000/DeepCellEss. The source code and data underlying this study can be obtained from https://github.com/CSUBioGroup/DeepCellEss. …”
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    DeepCellEss: cell line-specific essential protein prediction with attention-based interpretable deep learning
  10. 2810
    “…AVAILABILITY AND IMPLEMENTATION: The source code is available at GitHub (https://github.com/rupinas/LAPINE) and Figshare (https://figshare.com/articles/software/LAPINE/21750245) to facilitate its use. …”
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    Large-scale prediction of adverse drug reactions-related proteins with network embedding
  11. 2811
    “…AVAILABILITY AND IMPLEMENTATION: Visual Omics can be used at http://bioinfo.ihb.ac.cn/visomics. Source code can be downloaded at http://bioinfo.ihb.ac.cn/software/visomics/visomics-1.1.tar.gz. …”
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    Visual Omics: a web-based platform for omics data analysis and visualization with rich graph-tuning capabilities
  12. 2812
    “…AVAILABILITY AND IMPLEMENTATION: The R-package and technical documentation is available at https://github.com/Enserink-lab/screenwerk; the R source code is publicly available at https://github.com/Enserink-lab/screenwerk under GNU General Public License v3.0; bayesynergy is accessible at https://github.com/ocbe-uio/bayesynergy. …”
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    screenwerk: a modular tool for the design and analysis of drug combination screens
  13. 2813
    “…AVAILABILITY AND IMPLEMENTATION: The source code is available at https://github.com/23AIBox/23AIBox-DFinder. …”
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    DFinder: a novel end-to-end graph embedding-based method to identify drug–food interactions
  14. 2814
    “…Website implemented in Python and PostgreSQL, with all major browsers supported. The source code is available at https://github.com/sychen9584/MAGNET.…”
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    MAGNET: A web-based application for gene set enrichment analysis using macrophage data sets
  15. 2815
    “…Our study is helpful for better understanding the twofold channel opening mechanism and provides a potential target for preventing the opening of the channels, which is of great significance for PV vaccine design. The source code of this study is available at https://github.com/SJGLAB/CapsidKeyRes.git.…”
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    Identification of the Intrinsic Motions and Related Key Residues Responsible for the Twofold Channel Opening of Poliovirus Capsid by Using an Elastic Network Model Combined with an Internal Coordinate
  16. 2816
    “…In particular, we implemented: (i) our custom data-partitioning algorithm optimized to work with the alignment reads, (ii) a novel and unique approach to process alignment events from sequencing reads using the MD tags, (iii) the source code micro-optimizations for recurrent operations, and (iv) a modular structure of the algorithm. …”
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    Cloud-native distributed genomic pileup operations
  17. 2817
    “…To further facilitate the research community, we incorporated the recommendation method into an online cloud services for genomic data analysis, which is available at https://c.solargenomics.com/ via a simple registration. In addition, the source code and a pre-trained model is available at https://github.com/hello-json/CallerRecommendation for academic usages only.…”
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    Is an SV caller compatible with sequencing data? An online recommendation tool to automatically recommend the optimal caller based on data features
  18. 2818
    “…For read mapping, BLEND is faster by 0.8×–4.1× (on average 1.7×) than minimap2. Source code is available at https://github.com/CMU-SAFARI/BLEND.…”
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    BLEND: a fast, memory-efficient and accurate mechanism to find fuzzy seed matches in genome analysis
  19. 2819
    “…AVAILABILITY AND IMPLEMENTATION: The source code is available at the github repository: https://github.com/andylun96/DAPSNet.…”
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    Dual Attention and Patient Similarity Network for drug recommendation
  20. 2820
    “…Combining TransFun predictions and sequence similarity-based predictions can further increase prediction accuracy. AVAILABILITY: The source code of TransFun is available at https://github.com/jianlin-cheng/TransFun…”
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    Combining protein sequences and structures with transformers and equivariant graph neural networks to predict protein function
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