🧬 MSABrowser: dynamic and fast visualization of sequence alignments, variations, and annotations

showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.

SWift and Optimized Recognition of protein Domains

Estimate PTM hotspots in protein sequence alignments

A suite of tools to build and search generalized profiles

DrugDomain database

MetaDome is aimed at professionals in the (bio-)medical field of human genetics who wish to visualize the position of their mutation of interest in the context of general population-based genetic variation and provide detailed information of pathogenic variants found across homologous domain positions.

dom2vec: Protein domain embeddings

FAS - Tool for Feature Architecture Similarity calculation

:open_hands: TADOSS: TAndem DOmain Swap Stability predictor

An automated method to map yeast variants to proteins modifications and functional regions

Comparison of protein learning

Profile hidden Markov model (HMM) to identify the Kunitz domain in protein sequences, using MSA-guided training and optimization.

protein domain prediction

UniParc dataset describing ~300 million protein sequences converted into relational tables accessible through Google BigQuery (and as Parquet files).

Refining Domain Boundaries and Performing Large Scale Parsing

Protein-RNA docking benchmark v3.0

CroMaSt (Cross Mapper of domain Structural instances) is an automated iterative workflow to clarify domain definition by cross-mapping of domain structural instances between domain databases.

Automated analysis tool for mutations in promoters, transcription factor binding sites, coding regions and protein domains in the context of gene regulatory networks.

Protein sequence domain predictor

An R package to identify plant transcription factors from protein sequence data and classify them in families

THIS PROJECT IS NO LONGER SUPPORTED See Brivez Instead!! https://github.com/furacca/brivez/ - ------------------------------------------ - Cuterle is a bioinformatic tool which return an output file containing every domain annotated by InterProScan via Pfam or SMART analysis from the list of protein submitted.

Brivez is a bioinformatic tool thought as Quality of Life's improvement, providing high quantity of data in a snap, giving you a quick view on what you could find inside your transcriptome/sequences' list.

Using BLAST and Transdecoder.

Building structure-informed Profile HMMs for Kunitz/BPTI-type protease inhibitor domain detection, comparing sequence-based vs. structure-based approaches with 2-fold cross-validation.

Snakemake pipeline for searching genomic sequences for those that encode proteins containing domains of choice

Mapping domain co-occurrence networks with emphasis on c-d-GMP binding domains.

InterProScan MCP server for protein domain and functional analysis

A Bio2BEL package for converting InterPro to BEL

HMM protein domain prediction