👋 Welcome to BioF3's Weekly Roundup! Today's edition features 5 GitHub projects and 2 research papers from bioRxiv, arXiv, and PubMed.
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1. cbioportal
🔧 GitHub Project | Language:
Java| ⭐969| 🍴830
cBioPortal for Cancer Genomics
Key Topics: cancer-genomics precision-medicine science visualization
AI Technical Review (深度解读)
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Description: cBioPortal for Cancer Genomics Topics: cancer-genomics, precision-medicine, science, visualization
README:
cBioPortal
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Description: Python library to facilitate genome assembly, annotation, and comparative genomics Topics: allmaps, assembly, bioinformatics, blast, comparative-genomics, genetic-maps, genome-sequencing, genomics, sequence-alignments, synteny, variant-calling
README:
JCVI: A Versatile Toolkit for Co...
3. pysam
🔧 GitHub Project | Language:
Cython| ⭐881| 🍴296
Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtools, bcftools, and tabix.
Key Topics: bioinformatics htslib ngs python
AI Technical Review (深度解读)
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Description: Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtools, bcftools, and tabix. Topics: bioinformatics, htslib, ngs, python
README:
Pysam =...
4. goatools
🔧 GitHub Project | Language:
Python| ⭐878| 🍴214
Python library to handle Gene Ontology (GO) terms
Key Topics: bioinfomatics fdr fdr-benjamini fisher-tests gene-ontology gene-set-enrichment genomics goslim-terms
AI Technical Review (深度解读)
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Description: Python library to handle Gene Ontology (GO) terms Topics: bioinfomatics, fdr, fdr-benjamini, fisher-tests, gene-ontology, gene-set-enrichment, genomics, goslim-terms, holm-sidak, sidak
README:
GOATOOLS: A Python library for Gene Ontology analyses
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Description: Phylogenetic orthology inference for comparative genomics Topics: gene-duplication, gene-trees, orthogroup, orthologs
README:
What's new
OrthoFinder has a new home: https://github.com/OrthoFinder/OrthoFinder
All future development and support will take place there. The future o...
6. Taurochenodeoxycholic acid alleviates obesity-induced endothelial dysfunction.
📄 PubMed Article | Date:
2026 Mar 9| Category:European heart journal
Authors: Lu H, Wu Z, Wan M et al.
AI Research Digest (科研解读)
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Taurochenodeoxycholic acid alleviates obesity-induced endothelial dysfunction....
7. Long-term prognosis of lean MASLD: evidence from three population-based prospective cohorts.
📄 PubMed Article | Date:
2026 Mar 6| Category:Gut
Authors: Huo Z, Chen Y, Huang Y et al.
AI Research Digest (科研解读)
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Long-term prognosis of lean MASLD: evidence from three population-based prospective cohorts....
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