Alexander Gress
@alexandergress.bsky.social
π€ 42
π₯ 73
π 7
Fellow of the Kalinina Lab at the Helmholtz Institute for Pharmaceutical Research Saarland (HIPS)
In the first few days after the update, our users unwillingly uncovered some bugs that slipped through our internal testing schemes. Everything that led to crashes in the last week is fixed now.
add a skeleton here at some point
9 days ago
0
0
0
I am delighted to announce our newest update of our
tools.helmholtz-hips.de/structman/
webserver. Highlights of the newest update: - Inclusion of the AlphaFold DB collaboration datasets - Addition of MSAs to StructMAn outputs - Addition of predicted complex structures
14 days ago
0
0
1
reposted by
Alexander Gress
bioRxiv Bioinfo
3 months ago
Information Leakage in Enzyme Substrate Prediction
https://www.biorxiv.org/content/10.64898/2026.02.26.708291v1
0
1
1
reposted by
Alexander Gress
3 months ago
We are happy to present a piece of analysis that I consider to have a major impact on our understanding of how good variant effect prediction (VEP) tools really are:
www.biorxiv.org/content/10.6...
.
loading . . .
https://www.biorxiv.org/content/10.64898/2026.02.17.706292v1
1
2
1
reposted by
Alexander Gress
German Conference on Bioinformatics #GCB2026
4 months ago
π§¬π₯οΈ Call for Abstracts OPEN! Join us in celebrating 40 years of the German Conference on
#Bioinformatics
(#GCB2026) π π SaarbrΓΌcken | π 22β25 Sep 2026 Submit your research & shape the future of Bioinformatics! Deadlines Workshops: 31 Mar 26 Talks: 3 May 26 Poster: 6 Aug 26 π GCB2026.DE
1
6
6
reposted by
Alexander Gress
bioRxiv Bioinfo
6 months ago
StructGuy: Data leakage free prediction of functional effects of genetic variants.
https://www.biorxiv.org/content/10.64898/2025.12.01.691563v1
0
1
1
reposted by
Alexander Gress
Jens Zentgraf
6 months ago
We are excited that our paper "Cleanifier: Contamination removal from microbial sequences using spaced seeds of a human pangenome index" is now published at Bioinformatics (
doi.org/10.1093/bioi...
). You can find it at gitlab (
gitlab.com/rahmannlab/c...
) or install it via PyPI or Bioconda.
loading . . .
Cleanifier: Contamination removal from microbial sequences using spaced seeds of a human pangenome index
AbstractMotivation. The first step when working with DNA data of human-derived microbiomes is to remove human contamination for two reasons. First, many co
https://doi.org/10.1093/bioinformatics/btaf632
1
12
9
reposted by
Alexander Gress
bioRxiv Bioinfo
9 months ago
Detection of alternative splicing: deep sequencing or deep learning?
https://www.biorxiv.org/content/10.1101/2025.08.23.671909v1
0
3
1
reposted by
Alexander Gress
bioRxiv Bioinfo
10 months ago
SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale
https://www.biorxiv.org/content/10.1101/2025.08.04.668429v1
0
8
5
reposted by
Alexander Gress
Matthias Flotho
10 months ago
Our preprint is finally out for SingleRust:
doi.org/10.1101/2025...
Stay tuned:
@singlerust.bsky.social
,
@ianfd.bsky.social
github.com/SingleRust
add a skeleton here at some point
0
2
3
reposted by
Alexander Gress
Roman Joeres
10 months ago
What an exciting week it's been at the
#ISMBECCB2025
conference! The Drug Bioinformatics group had a fantastic presence, with six members presenting their latest work across various COSIs.
www.linkedin.com/feed/update/...
loading . . .
What an exciting week it's been at the #ISMBECCB2025 conference in Liverpool! | Roman Joeres
What an exciting week it's been at the #ISMBECCB2025 conference in Liverpool! The Drug Bioinformatics group, led by Olga Kalinina, had a fantastic presence, with six members presenting their latest wo...
https://www.linkedin.com/feed/update/urn:li:activity:7354304374686261248/
1
4
3
reposted by
Alexander Gress
Roman Joeres
11 months ago
This week I presented DataSAIL at the
#ISMBECCB2025
conference in
#Liverpool
It has been an amazing chance and experience to meet many people working on information leakage. And getting great ideas to extend it Nicely supervised by & colaborated with
@dbblumenthal.bsky.social
@ok55991.bsky.social
0
5
4
I am very excited to share the publication of our tool StructMAn 2.0 in the NAR webserver issue (10.1093/nar/gkaf381). If you want to annotate protein structures to protein sequences or if you are looking for structural evidence for PPIs, consider using:
tools.helmholtz-hips.de/structman/
12 months ago
0
3
1
reposted by
Alexander Gress
Roman Joeres
about 1 year ago
DataSAIL is out in
@naturecomms.bsky.social
Since the preprint, we have improved the work a lot, thanks to countless reviewers and feedback. You can find it here:
nature.com/articles/s41...
Thanks,
@dbblumenthal.bsky.social
and
@ok55991.bsky.social
, for helping and supervising me on this journey.
0
5
3
you reached the end!!
feeds!
log in