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MTD: A cloud-based omics database and interactive platform for .
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Methods for evaluating unsupervised vector representations of genomic regions.
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OMD Curation Toolkit: a workflow for in-house curation of public omics datasets.
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Joint Representation Learning for Retrieval and Annotation of Genomic Interval Sets.
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Challenges to sharing sample metadata in computational genomics.
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本文引用的文献

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Metadata retrieval from sequence databases with ffq.
Bioinformatics. 2023 Jan 1;39(1). doi: 10.1093/bioinformatics/btac667.
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Linking big biomedical datasets to modular analysis with Portable Encapsulated Projects.
Gigascience. 2021 Dec 6;10(12). doi: 10.1093/gigascience/giab077.
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The Sequence Read Archive: a decade more of explosive growth.
Nucleic Acids Res. 2022 Jan 7;50(D1):D387-D390. doi: 10.1093/nar/gkab1053.
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Sustainable data analysis with Snakemake.
F1000Res. 2021 Jan 18;10:33. doi: 10.12688/f1000research.29032.2. eCollection 2021.
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The nf-core framework for community-curated bioinformatics pipelines.
Nat Biotechnol. 2020 Mar;38(3):276-278. doi: 10.1038/s41587-020-0439-x.
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pysradb: A Python package to query next-generation sequencing metadata and data from NCBI Sequence Read Archive.
F1000Res. 2019 Apr 23;8:532. doi: 10.12688/f1000research.18676.1. eCollection 2019.
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Restructured GEO: restructuring Gene Expression Omnibus metadata for genome dynamics analysis.
Database (Oxford). 2019 Jan 1;2019:bay145. doi: 10.1093/database/bay145.
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NCBI GEO: archive for functional genomics data sets--update.
Nucleic Acids Res. 2013 Jan;41(Database issue):D991-5. doi: 10.1093/nar/gks1193. Epub 2012 Nov 27.
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GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor.
Bioinformatics. 2007 Jul 15;23(14):1846-7. doi: 10.1093/bioinformatics/btm254. Epub 2007 May 12.

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