📣 We’re pleased to announce the release of jackhmmer.
It’s now available for use, and we’d greatly value any feedback as we continue to improve the tool.
www.ebi.ac.uk/Tools/hmmer/...
Give it a try and share your thoughts!
#bioinformatics #hmmer
11.07.2025 07:09 — 👍 7 🔁 2 💬 0 📌 1
Thanks! We're actively working on bringing back the jackhmmer functionality. We'll definitely post an update here announcing it which should happen in the following months.
20.05.2025 12:27 — 👍 2 🔁 0 💬 2 📌 0
📣 We will be transitioning to a new website architecture on May 20, 2025.
We will not be running a parallel system, so you may have to make a few changes, especially if you are using the API.
07.05.2025 14:19 — 👍 4 🔁 2 💬 1 📌 1
Service will be interrupted tomorrow, Thursday 29th, 0700 - 1100 BST owing to planned infrastructure changes.
29.05.2019 09:18 — 👍 0 🔁 0 💬 0 📌 0
search services will be effected by this. https://x.com/emblebi/status/1091670896337698816
04.02.2019 10:11 — 👍 0 🔁 0 💬 0 📌 0
The August release of @hmm3r is out!
It now includes @ChEMBL as a searchable sequence database 🔎
Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer?seqdb=chembl
29.08.2018 09:04 — 👍 0 🔁 0 💬 0 📌 0
Try the latest version of @hmm3r with the brand new @uniprot data. You can submit your search here 🔎
https://www.ebi.ac.uk/Tools/hmmer/search
https://x.com/uniprot/status/1019592114932416512
19.07.2018 09:02 — 👍 0 🔁 0 💬 0 📌 0
Ever had too much data in your taxonomy tree?🌳 Try the new fisheye mode in the latest release of @hmm3r (“taxonomy” tab in your results) here https://www.ebi.ac.uk/Tools/hmmer/search/phmmer This visualisation uses this library https://github.com/ProteinsWebTeam/taxonomy-visualisation
26.06.2018 10:10 — 👍 1 🔁 0 💬 0 📌 0
Try the latest version of @hmm3r with the new @uniprot data. You can submit your search here 🔎
https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
https://x.com/uniprot/status/1010190457895374849
25.06.2018 13:08 — 👍 0 🔁 0 💬 0 📌 0
🚨 @hmm3r website availability at risk on Saturday 9th June 🚨
Due to important system maintenance at the @emblebi, the Hmmer Website might become unavailable for some time tomorrow afternoon (UK time). 🚧
Sorry for the inconvenience.
08.06.2018 14:54 — 👍 0 🔁 0 💬 0 📌 0
website now makes available @ensembl release 92 and @ensemblgenomes release 39. Try searching these databases now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
04.06.2018 07:25 — 👍 0 🔁 0 💬 0 📌 0
Try the latest version of @hmm3r with the new @uniprot data. You can submit your search here 🔎
https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
https://x.com/uniprot/status/999322111020814337
31.05.2018 14:43 — 👍 0 🔁 0 💬 0 📌 0
Are you experimenting with @BioSchemas? Have a look at the @hmm3r website. Pages are now annotated with structured data and result pages include current version of @BioSchemas annotations for protein, structures, and protein annotations.
https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
15.05.2018 12:13 — 👍 0 🔁 0 💬 0 📌 0
📢 With our newest release, you can now search the TreeFam database. Try it here https://www.ebi.ac.uk/Tools/hmmer/search/hmmscan and select the “TreeFam” option. http://www.treefam.org/
11.05.2018 14:24 — 👍 0 🔁 0 💬 0 📌 0
You can try the latest version of @hmm3r with the new @uniprot data.
Give it a go at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
https://x.com/uniprot/status/991241316561489921
08.05.2018 10:06 — 👍 0 🔁 0 💬 0 📌 0
The latest version of the @hmm3r website now contains the latest release of @ensemblgenomes, version 38. Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
08.02.2018 14:27 — 👍 0 🔁 0 💬 0 📌 0
This data release is already included in the new release of the @hmm3r website. Search @uniprot release 2018_01 at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/958736502808285184
01.02.2018 08:26 — 👍 0 🔁 0 💬 0 📌 0
📢 New version of the @hmm3r website available with MEROPS database version 12.
Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
24.11.2017 14:47 — 👍 0 🔁 0 💬 0 📌 0
📢 New version of the @hmm3r website available with the new 2017_11 release from @uniprot (see https://x.com/uniprot/status/933374715615379456 …)
Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
23.11.2017 11:43 — 👍 0 🔁 0 💬 0 📌 0
📢 New version of the @hmm3r website available with @CATHDatabase Gene3D version 16.0
Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/hmmscan?hmmdb=gene3d
08.11.2017 09:29 — 👍 1 🔁 0 💬 0 📌 0
📢 New version of @hmm3r website available with the brand new 2017_10 release from @uniprot. Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
02.11.2017 09:30 — 👍 0 🔁 0 💬 0 📌 0
And the data is already available in the new version of the @hmm3r website! Search the latest @uniprot data now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/913704907303243776
03.10.2017 08:06 — 👍 0 🔁 0 💬 0 📌 0
🔐 Remember that the switch is happening today, during the next hours. If your script starts failing please check the URL you are using. https://x.com/hmm3r/status/910134236434305027
02.10.2017 07:09 — 👍 0 🔁 0 💬 0 📌 0
📢 The new version of the @hmm3r website is out. It now includes @ensembl 90 and @ensemblgenomes 37. Try it at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer
29.09.2017 09:53 — 👍 0 🔁 0 💬 0 📌 0
Some servers stopped overnight, causing searches to be unavailable this morning. Everything should be back to normal now, sorry about that.
07.09.2017 14:39 — 👍 0 🔁 0 💬 0 📌 0
In jackhmmer searches you now have the “unselect all” option for easier sequence selection across iterations. Try it https://www.ebi.ac.uk/Tools/hmmer/search/jackhmmer
11.07.2017 09:23 — 👍 0 🔁 0 💬 0 📌 0
Try the @hmm3r website here https://www.ebi.ac.uk/Tools/hmmer/search/phmmer …. The latest version includes @ensembl release 89 and @ensemblgenomes release 36.
07.07.2017 09:10 — 👍 0 🔁 0 💬 0 📌 0
New @uniprot release, and the data is already available to search from in our latest @hmm3r release. give it a go at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/882621769001185280
06.07.2017 10:23 — 👍 0 🔁 0 💬 0 📌 0
Give the new version of @hmm3r a go at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer. Now with the latest @uniprot June 2017 release
08.06.2017 07:05 — 👍 0 🔁 0 💬 0 📌 0
Try out hmmscan on the @hmm3r website at https://www.ebi.ac.uk/Tools/hmmer/search/hmmscan Gene3D results are now post-processed w/ @CATHDatabase's cath-resolve-hits
22.05.2017 09:20 — 👍 0 🔁 0 💬 0 📌 0
Associate Professor, University of Arizona
Algorithms, Machine Learning, Data Resources
Computational Genomics, Drug Discovery, Animal Tracking, etc.
wheelerlab.org
Executive Director EMBL. I have an insatiable love of biology. Consultant to ONT and Cantata (Dovetail)
The non-coding RNA sequence database providing unified access to a comprehensive and up-to-date set of non-coding RNAs
Proteomics Identification Database (https://www.ebi.ac.uk/pride/)
Pathogen informatics and modelling http://bacpop.org
(Research group leader at EMBL-EBI - http://ebi.ac.uk/research/lees/)
Professor of Algorithmic and Microbial Genomics at the University of Bath (UK). Pangenomes, drug resistance (esp TB), data structures for DNA search, plasmid evolution, global microbial surveillance. Open Data, reproducibility
Bioinformatician, herder of cats, lover of pacific screech owls.
Group Leader at EMBL-EBI. Our group uses interdisciplinary approaches including network analysis, omics integration and mathematical modelling to study the context specific regulation of human cell signalling.
Account of the Saez-Rodriguez lab at EMBL-EBI and Heidelberg University. We integrate #omics data with mechanistic molecular knowledge into #opensource #ML methods
Website: https://saezlab.org/
GitHub: https://github.com/saezlab/
Research Group Leader at EMBL-EBI | Former postdoc
at Broad Institute | Former PhD student at Sanger Institute | Lineage tracing, cancer genomics, human development
Computational biologist using omics data (imaging, gene expression) to investigate the impacts of environmental contaminants on biological systems
Group Leader @EMBL-EBI (www.ewaldlab.org)
Director of the BioVisionCenter at UZH and Research Group Leader at EMBL-EBI. Loves bioimage analysis, mountains, and birds.
Developing macromolecular structure resources and tools for life science.
- Founding partner of the wwPDB.
- Manage the community-led PDBe-KB resource and the AlphaFold Protein Structure Database, a collaboration with Google DeepMind.
- Part of EMBL-EBI
The Gene Ontology (GO, geneontology.org) knowledgebase is the world’s largest source of information on gene function. Our mission is to develop a comprehensive, computational model of biological systems, ranging from the molecular to organism level.
Reactome is an open source curated pathway database that provides pathway and network analysis tools for life science researchers.
The European Nucleotide Archive offers open data archiving across species, platforms & applications. A globally comprehensive record & platform for data coordination
The NHGRI-EBI Catalog of genome-wide association studies (GWAS)
www.ebi.ac.uk/gwas
Submit your #gwas data on http://bit.ly/38rNSjx
#OpenAccess #FAIRprinciples
The Ensembl project seeks to enable genomic science by providing high-quality, integrated annotation.
Vertebrates: www.ensembl.org
Non-vertebrates: www.ensemblgenomes.org
You can test the new Ensembl browser and share your feedback at beta.ensembl.org
Public-private partnership using human genetics and genomics data for systematic drug target identification and prioritisation. http://blog.opentargets.org
