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Utilization of a natural language processing-based approach to determine the composition of artifact residues | BMC Bioinformatics

Mathematical modelA novel functionality of our approach is to introduce a new and automated method to compare the mass spectral feature similarities between experimental...

GenRCA: a user-friendly rare codon analysis tool for comprehensive evaluation of codon usage preferences based on coding sequences in genomes | BMC Bioinformatics

Bahiri-Elitzur S, Tuller T. Codon-based indices for modeling gene expression and transcript evolution. Comput Struct Biotechnol J. 2021;19:2646–63.Article  CAS  ...

Facilitating integrative and personalized oncology omics analysis with UCSCXenaShiny

Omics datasets curation from UCSC XenaWe have curated multi-omics pan-cancer datasets from UCSC Xena data hubs (https://toil.xenahubs.net, https://gdc.xenahubs.net, https://tcga.xenahubs.net, https://pancanatlas.xenahubs.net) for each of TPC...

Mugen-UMAP: UMAP visualization and clustering of mutated genes in single-cell DNA sequencing data | BMC Bioinformatics

ImplementationMugen-UMAP is implemented in Python with three main features (Fig. 1). (i) convert, allows users to convert their somatic single-nucleotide variants (SNVs) annotation files and the...

DRCTdb: disease-related cell type analysis to decode cell type effect and underlying regulatory mechanisms

Overview of DRCTdbThe DRCTdb provides multiple single-cell multiomics datasets with nearly all available human tissues. We manually curated the data and added corresponding metadata...

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