The Atkinson Lab Server Portal
Welcome! Here we provide access to our online tools and
services.
Online tools
iLund4u
iLund4u is a bioinformatics tool for search and annotation of accessory genes and hotspots in a large set of proteomes. With web version you can find whether homologues of your query protein are encoded in variable islands and hotspots.
webFlaGs
Predicting protein functional association in microbial and viral genomes by analysis of conservation of genomic context (Flanking Genes).
uORF4u
A bioinformatics tool for conserved uORF annotation in 5′ upstream sequences of a user-defined protein of interest or a set of protein homologues. It can also be used to find small ORFs within a set of nucleotide sequences.
MSA4u
A simple visualisation tool for Multiple Sequence
Alignments.
Supported input: Multiple
sequence
alignments or unaligned sequences in fasta format.
Databases
iLund4u DB
iLund4u phage database provides an interactive platform to explore hotspot-encoded phage proteins annotated with iLund4u. It consists of 242.8K protein families encoded in 16K hotspots across 218K phage genomes.
VAD Network
Web interface for exploring structural clusters in the Viral AlphaFold Database. Includes structural predictions, sequence and structure clusters, and metadata with hits to protein sequence and structure databases.
NetFlax
Interactive NetFlax (Network-FlaGs for toxins and antitoxins) predicted toxin-antitoxin pairs interface with structural predictions.
Contact
The Atkinson lab Home Page
We are located at the BMC as part of the Faculty of Medicine, Lund University, Sweden 🇸🇪
Mailing address:
Gemma Atkinson
BMC, Lund University
Sölvegatan 17, C13, 223 62 Lund, Sweden
You can also contact us by e-mail:
Gemma C. Atkinson, Group Leader
gemma.atkinson(at)med.lu.se
Artyom A. Egorov, PhD student and developer
artem.egorov(at)med.lu.se
(for technical questions)