kegg pull: a software package for the restful access and pulling from the kyoto encyclopedia of gene and genomes.
E. Huckvale and H. N. Moseley. BMC Bioinformatics, 24:1–17, 12 2023. ISSN 14712105. doi: 10.1186/S12859-023-05208-0/TABLES/12. URL https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-023-05208-0 http://creativecommons.org/publicdomain/zero/1.0/.
References
Kawashima S, Katayama T, Sato Y, Kanehisa M. KEGG API: a web service using SOAP/WSDL to Access the KEGG System. Genome Inform. 2003;14:673.
Kanehisa M. Toward understanding the origin and evolution of cellular organisms. Protein Sci. 2019;28:1947–51.
Kanehisa M, Furumichi M, Sato Y, Ishiguro-Watanabe M, Tanabe M. KEGG: integrating viruses and cellular organisms. Nucleic Acids Res. 2021;49:D545–51.
The kyoto encyclopedia of genes and genomes—kegg. Yeast. 2000;1:48–55.
Fielding RT. Representational state transfer. Architectural Styles and the Design of Network-Based Software Architectures. Doctoral dissertation. University of California Irvine, Irvine, CA, USA; 2000.
Reitz K. requests. Computer software. Pypi; 2013.
Christudas B. cURL and Postman. In: Practical Microservices Architectural Patterns: Event-Based Java Microservices with Spring Boot and Spring Cloud. Berkeley, CA: Apress. 2019;847–55.
R Core Team, editor. R: A Language and environment for statistical computing. 2018.
Rossum GV, Drake FL. Python 3 Reference Manual. CreateSpace; 2009.
Wilkinson MD, Dumontier M, Aalbersberg IJJ, Appleton G, Axton M, Baak A, et al. The FAIR guiding principles for scientific data management and stewardship. Sci Data. 2016;3:160018.
Tenenbaum D, Volkening J. KEGGREST. Computer software. Bioconductor Package Maintainer; 2022.
Castelli FM. KEGGutils v04.1. Computer software. 2022. Zenodo. https://doi.org/10.5281/zenodo.7482523.
Cock PJA. Biopython: freely available Python tools for computational molecular biology and bioinformatics. Computer software. PyPi; 2009.
Giampieri E. keggrest. Computer software. PyPi; 2013.
Related document on the Qiita
making reference list on biorxiv pdf file
https://qiita.com/kaizen_nagoya/items/75f6f93ce9872a5d622d
Genome modeling and design across all domains of life with evo 2
https://qiita.com/kaizen_nagoya/items/eecda74f758008633ee2
BIOREASON: DNA-LLMモデルによるマルチモーダル生物学的推論の動機付け
https://qiita.com/kaizen_nagoya/items/0718b214043a614deee0
Mckusick’s online mendelian inheritance in man (omim®)
https://qiita.com/kaizen_nagoya/items/c599d867201d1ffb1f4d
Anthropic. Claude 3.7 sonnet
https://qiita.com/kaizen_nagoya/items/4364d9c475114353cf2a
Genomic language models: Opportunities and challenges
https://qiita.com/kaizen_nagoya/items/f797330e64e0c7d05f39
A dna language model based on multispecies alignment predicts the effects of genome-wide variants
https://qiita.com/kaizen_nagoya/items/6e8858c2395dcc98804a
A genomic mutational constraint map using variation in 76,156 human genomes
https://qiita.com/kaizen_nagoya/items/e799ad85ee98bb2a8cf6
Genomic language models: Opportunities and challenges
https://qiita.com/kaizen_nagoya/items/f797330e64e0c7d05f39
Nucleotide transformer: building and evaluating robust foundation models for human genomics
https://qiita.com/kaizen_nagoya/items/1c147c2b095364f04ef7
A genomic mutational constraint map using variation in 76,156 human genomes
https://qiita.com/kaizen_nagoya/items/e799ad85ee98bb2a8cf6
DeepSeek-AI
https://qiita.com/kaizen_nagoya/items/bb5ee9f17c03e07659d8
Codontransformer: A multispecies codon optimizer using context-aware neural networks.
https://qiita.com/kaizen_nagoya/items/d4be1d4dd9eb307f09cc
Medrax: Medical reasoning agent for chest x-ray
https://qiita.com/kaizen_nagoya/items/94c7835b2f461452b2e7
Benchmarking dna foundation models for genomic sequence classification running title: Dna foundation models benchmarking.
https://qiita.com/kaizen_nagoya/items/01e3dde0d8274fee0fd8
Lora: Low-rank adaptation of large language models,
https://qiita.com/kaizen_nagoya/items/877058f681d77808b44c
kegg pull: a software package for the restful access and pulling from the kyoto encyclopedia of gene and genomes.
https://qiita.com/kaizen_nagoya/items/05be40565793f2b4f7f3