BIOINFORMATICS TOOLS
Proteomics Tools
Protein Sequence Analysis and Function Prediction
- ProtParam – Allows the computation of various physical and chemical parameters for a given protein sequence.
- PEAKS CMD – It can perform de novo sequencing, protein identification, multi-engine protein identification,
PTM search, sequence homology searching and quantification. -
PEAKS Studio Xpro – A software platform with complete solutions for discovery proteomics, including protein identification and quantification, analysis of post-translational modifications (PTMs) and sequence variants (mutations), and peptide/protein de novo sequencing. (Commercial)
- PANTHER-PSEP – Estimates the likelihood of a particular nonsynonymous (amino-acid changing) coding SNP to cause a functional impact on the protein.
- ProtScale – It can compute and represent the profile produced by any amino acid scale on a selected protein.
- PredictProtein – Service for protein structure prediction, protein sequence analysis, protein function prediction, protein sequence alignments, bioinformatics.
- MutationTaster – Identifies disease-causing ability of sequence alterations.
-
MuPIT Interactive – Mapping variant positions to annotated, interactive 3D structures.
-
LS-SNP – An annotated database of SNPs. Currently only coding non-synonomous SNPs found in human genes are included.
- PeCop – Predicting Persistently Conserved Positions.
Protein Domain Prediction
- SMART@EMBL – The web server is used for the identification and analysis of protein domains within protein sequences..
- MEME – Motif-based sequence analysis tools.
- InterPro@EBI – Protein domain and family classification database.
- TMHMM 2.0 – Web server for the prediction of transmembrane helices in proteins.
Must Read
How LUC7 Protein Family Members Differentially Regulate mRNA Splicing in Cancer
Myeloid neoplasms are linked to mutations or deletions of the U1 snRNP-associated factor LUC7L2, and cellular metabolism is changed when LUC7L2 is knocked down....
UNC Researchers Unveil DELi, a Powerful Open-Source Tool for DNA-Encoded Library Informatics
The entire process of drug discovery costs more than a billion dollars and takes over a decade to complete. This is an expensive and...
RNA-BAnG: A Deep Learning Breakthrough for Designing Protein-Binding RNA Sequences
One of the most significant challenges in computational and experimental biology is creating RNA molecules that interact with particular proteins. The practical use of...
EasyMetagenome: A Simple Yet Powerful Pipeline for Shotgun Metagenomic Analysis in Microbiome Research
Shotgun metagenomics has revolutionized microbiome research, allowing scientists to study microbial communities at an unprecedented depth. However, analyzing the massive amounts of sequencing data...
Democratizing Cancer Omics: How DrBioRight 2.0 Simplifies Complex Data Analysis
Functional proteomics makes the identification of new biomarkers and treatment targets easier by offering vital insights into cancer mechanisms. By combining information from over...