Anthony Mathelier
@amathelier.bsky.social
Computational biologist interested in gene expression regulation.
Associate Director and Group Leader at Norwegian Centre for Molecular Biosciences and Medicine, University of Oslo, Nordic EMBL Partnership for Molecular Medicine.
https://mathelierlab.com
Associate Director and Group Leader at Norwegian Centre for Molecular Biosciences and Medicine, University of Oslo, Nordic EMBL Partnership for Molecular Medicine.
https://mathelierlab.com
Pinned
Anthony Mathelier
@amathelier.bsky.social
· Nov 18
🧵 Bioinformatics faces a critical challenge: despite its importance, software quality often falls short due to the lack of proper development practices.
In our latest paper, we advocate for improving software quality in bioinformatics through teamwork.
academic.oup.com/bioinformati...
In our latest paper, we advocate for improving software quality in bioinformatics through teamwork.
academic.oup.com/bioinformati...
Reposted by Anthony Mathelier
You swear at the code.
You’re sure the computer’s being stupid.
But it’s not the computer. It never was. 🧵
You’re sure the computer’s being stupid.
But it’s not the computer. It never was. 🧵
January 24, 2026 at 2:15 PM
You swear at the code.
You’re sure the computer’s being stupid.
But it’s not the computer. It never was. 🧵
You’re sure the computer’s being stupid.
But it’s not the computer. It never was. 🧵
Reposted by Anthony Mathelier
Took this photo 12 years ago
January 22, 2026 at 2:37 AM
Took this photo 12 years ago
inMOTIFin is now published in Bioinformatics! 🎉
It lets you generate random sequences and TF motifs, and insert motif instances with custom spacing, co‑occurrence and orientation. Use cases for de novo motif discovery, cooperative TF binding, and DL explainability.
academic.oup.com/bioinformati...
It lets you generate random sequences and TF motifs, and insert motif instances with custom spacing, co‑occurrence and orientation. Use cases for de novo motif discovery, cooperative TF binding, and DL explainability.
academic.oup.com/bioinformati...
January 20, 2026 at 8:17 PM
inMOTIFin is now published in Bioinformatics! 🎉
It lets you generate random sequences and TF motifs, and insert motif instances with custom spacing, co‑occurrence and orientation. Use cases for de novo motif discovery, cooperative TF binding, and DL explainability.
academic.oup.com/bioinformati...
It lets you generate random sequences and TF motifs, and insert motif instances with custom spacing, co‑occurrence and orientation. Use cases for de novo motif discovery, cooperative TF binding, and DL explainability.
academic.oup.com/bioinformati...
Reposted by Anthony Mathelier
Start your independent as an ELISIR fellow right after your PhD, in one of the most terrific places in Europe !
January 14, 2026 at 1:13 PM
Start your independent as an ELISIR fellow right after your PhD, in one of the most terrific places in Europe !
Some interesting points raised here. I'm personally in favor of applications to be evaluated for soundness and feasibility, followed by lottery.
Point of no returns: researchers are crossing a threshold in the fight for funding www.nature.com/articles/d41...
Point of no returns: researchers are crossing a threshold in the fight for funding www.nature.com/articles/d41...
Client Challenge
www.nature.com
January 14, 2026 at 2:49 PM
Some interesting points raised here. I'm personally in favor of applications to be evaluated for soundness and feasibility, followed by lottery.
Point of no returns: researchers are crossing a threshold in the fight for funding www.nature.com/articles/d41...
Point of no returns: researchers are crossing a threshold in the fight for funding www.nature.com/articles/d41...
Reposted by Anthony Mathelier
@amathelier.bsky.social from NCMBM, says: “ I am very proud to see JASPAR officially recognised as a Core Data Resource by ELIXIR and it is wonderful to see JASPAR join the ranks of other well-established European resources."
Read more about this achievement: tinyurl.com/4r6zntvw
Read more about this achievement: tinyurl.com/4r6zntvw
JASPAR recognised as an ELIXIR Core Data Resource
- NCMBM - Norwegian Centre for Molecular Biosciences and Medicine
ELIXIR has announced the life science data resources selected in its latest evaluation round for ELIXIR Core Data Resources (CDRs) and ELIXIR Deposition Databases. Among the six newly approved Core Da...
tinyurl.com
January 12, 2026 at 9:56 AM
@amathelier.bsky.social from NCMBM, says: “ I am very proud to see JASPAR officially recognised as a Core Data Resource by ELIXIR and it is wonderful to see JASPAR join the ranks of other well-established European resources."
Read more about this achievement: tinyurl.com/4r6zntvw
Read more about this achievement: tinyurl.com/4r6zntvw
Recognition as an @elixir-europe.org Core Data Resource reinforces JASPAR’s role as a trusted, FAIR reference for TF-based gene regulation research.
Proud of this achieved milestone. A big thanks to all collaborators over the years and to the community.
Proud of this achieved milestone. A big thanks to all collaborators over the years and to the community.
📣JASPAR has been added to ELIXIR Core Data Resources! hashtag#ELIXIRCDRs are European hashtag#lifescience data resources that are fundamentally important 🙌 to biological and biomedical research and long-term preservation of biological data.
Check @ELIXIREurope ’s news release: tinyurl.com/ypjnfuum
Check @ELIXIREurope ’s news release: tinyurl.com/ypjnfuum
January 12, 2026 at 11:26 AM
Recognition as an @elixir-europe.org Core Data Resource reinforces JASPAR’s role as a trusted, FAIR reference for TF-based gene regulation research.
Proud of this achieved milestone. A big thanks to all collaborators over the years and to the community.
Proud of this achieved milestone. A big thanks to all collaborators over the years and to the community.
E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism | Science www.science.org/doi/10.1126/...
E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism
Transcription factors (TFs) may activate or repress gene expression through an interplay of different mechanisms, including RNA polymerase (RNAP) recruitment, exclusion, and initiation. However, depen...
www.science.org
January 10, 2026 at 9:20 AM
E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism | Science www.science.org/doi/10.1126/...
Reposted by Anthony Mathelier
Two new chapters from my free online book in human genetics out this weekend!
These complete Part 3 of the book, on human population structure and history:
3.3: Human prehistory [separate thread]
3.4: Ancient DNA: a genetic time capsule [this thread]
web.stanford.edu/group/pritch...
These complete Part 3 of the book, on human population structure and history:
3.3: Human prehistory [separate thread]
3.4: Ancient DNA: a genetic time capsule [this thread]
web.stanford.edu/group/pritch...
September 23, 2024 at 9:48 PM
Two new chapters from my free online book in human genetics out this weekend!
These complete Part 3 of the book, on human population structure and history:
3.3: Human prehistory [separate thread]
3.4: Ancient DNA: a genetic time capsule [this thread]
web.stanford.edu/group/pritch...
These complete Part 3 of the book, on human population structure and history:
3.3: Human prehistory [separate thread]
3.4: Ancient DNA: a genetic time capsule [this thread]
web.stanford.edu/group/pritch...
Reposted by Anthony Mathelier
A major output of the 4D Nucleome project appeared today. This is the joint effort of many scientists working together and (publicly) sharing data and results for several years. We hope this is of interest to many genome biologists!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
An integrated view of the structure and function of the human 4D nucleome - Nature
The 4D Nucleome Project demonstrates the use of genomic assays and computational methods to measure genome folding and then predict genomic structure from DNA sequence, facilitatin...
www.nature.com
December 17, 2025 at 8:59 PM
A major output of the 4D Nucleome project appeared today. This is the joint effort of many scientists working together and (publicly) sharing data and results for several years. We hope this is of interest to many genome biologists!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Anthony Mathelier
📣 The call for tutorials & workshops at #ECCB2026 is now open! Share your tools, methods or expertise with the community.
🗓️ Deadline: 5 January 2026
👉 Submit: tinyurl.com/tw-eccb26
💡 ECCB will take place on 31 Aug–4 Sept in Geneva, gathering 1,000+ scientists from academia, industry, & healthcare.
🗓️ Deadline: 5 January 2026
👉 Submit: tinyurl.com/tw-eccb26
💡 ECCB will take place on 31 Aug–4 Sept in Geneva, gathering 1,000+ scientists from academia, industry, & healthcare.
November 3, 2025 at 8:09 AM
📣 The call for tutorials & workshops at #ECCB2026 is now open! Share your tools, methods or expertise with the community.
🗓️ Deadline: 5 January 2026
👉 Submit: tinyurl.com/tw-eccb26
💡 ECCB will take place on 31 Aug–4 Sept in Geneva, gathering 1,000+ scientists from academia, industry, & healthcare.
🗓️ Deadline: 5 January 2026
👉 Submit: tinyurl.com/tw-eccb26
💡 ECCB will take place on 31 Aug–4 Sept in Geneva, gathering 1,000+ scientists from academia, industry, & healthcare.
Reposted by Anthony Mathelier
JASPAR 2026 is out 🎉
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
JASPAR: An open-access database of transcription factor binding profiles
JASPAR is the largest open-access database of curated and non-redundant transcription factor (TF) binding profiles from six different taxonomic groups.
jaspar.elixir.no
December 3, 2025 at 2:43 PM
JASPAR 2026 is out 🎉
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
The new release massively expands the TF motif collections and adds a dedicated DeepLearning collection of motifs learned from deep learning models.
Database: jaspar.elixir.no
Paper (NAR): doi.org/10.1093/nar/...
🧵1/2
Reposted by Anthony Mathelier
Glad to have contributed to this work, and big thanks to @amathelier.bsky.social, @damlaob.bsky.social, and @ievarau.bsky.social (and the whole JASPAR crew) for this great effort.
#JASPAR #TFmotifs #DeepLearning #Genomics
🧵2/2
#JASPAR #TFmotifs #DeepLearning #Genomics
🧵2/2
December 3, 2025 at 2:43 PM
Glad to have contributed to this work, and big thanks to @amathelier.bsky.social, @damlaob.bsky.social, and @ievarau.bsky.social (and the whole JASPAR crew) for this great effort.
#JASPAR #TFmotifs #DeepLearning #Genomics
🧵2/2
#JASPAR #TFmotifs #DeepLearning #Genomics
🧵2/2
Reposted by Anthony Mathelier
From @damlaob.bsky.social & colleagues in @narjournal.bsky.social #NARDatabaseIssue | #JASPAR 2026: expansion of transcription factor binding profiles and integration of deep learning models | #Bioinformatics #Genomics #Database #OpenScience #TFBS 🧬 🖥️🧪🔓
⬇️
academic.oup.com/nar/advance-...
⬇️
academic.oup.com/nar/advance-...
JASPAR 2026: expansion of transcription factor binding profiles and integration of deep learning models
Abstract. JASPAR (https://jaspar.elixir.no/) is an open-access database that has provided high-quality, manually curated, and non-redundant DNA binding pro
academic.oup.com
December 2, 2025 at 1:25 PM
From @damlaob.bsky.social & colleagues in @narjournal.bsky.social #NARDatabaseIssue | #JASPAR 2026: expansion of transcription factor binding profiles and integration of deep learning models | #Bioinformatics #Genomics #Database #OpenScience #TFBS 🧬 🖥️🧪🔓
⬇️
academic.oup.com/nar/advance-...
⬇️
academic.oup.com/nar/advance-...
Reposted by Anthony Mathelier
It's always exciting when the latest edition of JASPAR comes out. Great leadership by @amathelier.bsky.social and pleased to welcome @anshulkundaje.bsky.social to the journey. #Jaspar2026
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
December 3, 2025 at 4:52 AM
It's always exciting when the latest edition of JASPAR comes out. Great leadership by @amathelier.bsky.social and pleased to welcome @anshulkundaje.bsky.social to the journey. #Jaspar2026
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
Reposted by Anthony Mathelier
Together, these approaches create a uniquely powerful platform for exploring how transcription factors interpret the genome.”
📰 Read the full story: www.med.uio.no/ncmbm/englis...
Congrats to the entire JASPAR community for driving this resource forward to shape the future of regulatory genomics!
📰 Read the full story: www.med.uio.no/ncmbm/englis...
Congrats to the entire JASPAR community for driving this resource forward to shape the future of regulatory genomics!
JASPAR goes Deep Learning!
- NCMBM - Norwegian Centre for Molecular Biosciences and Medicine
A new era for motif resourcesThe team behind JASPAR, led by Anthony Mathelier at NCMBM, has released the 11th update. JASPAR is built and maintained by an international consortium of research groups, ...
www.med.uio.no
December 2, 2025 at 7:38 AM
Together, these approaches create a uniquely powerful platform for exploring how transcription factors interpret the genome.”
📰 Read the full story: www.med.uio.no/ncmbm/englis...
Congrats to the entire JASPAR community for driving this resource forward to shape the future of regulatory genomics!
📰 Read the full story: www.med.uio.no/ncmbm/englis...
Congrats to the entire JASPAR community for driving this resource forward to shape the future of regulatory genomics!
Proud of JASPAR 2026 release with major expansion of PFM profiles and a new collection of deep learning models interpreted to extract learnt motifs!
Work led by @ievarau.bsky.social and @damlaob.bsky.social w/ @anshulkundaje.bsky.social @wywywa.bsky.social @flowerwhatelse.bsky.social labs & more
Work led by @ievarau.bsky.social and @damlaob.bsky.social w/ @anshulkundaje.bsky.social @wywywa.bsky.social @flowerwhatelse.bsky.social labs & more
🚀 JASPAR goes Deep Learning! A major milestone for regulatory genomics.
Excited to share the newest JASPAR 2026 update, led by @amathelier.bsky.social from @ncmbm.bsky.social and supported by an international network of contributors across ten countries!
📄Publication: doi.org/10.1093/nar/...
Excited to share the newest JASPAR 2026 update, led by @amathelier.bsky.social from @ncmbm.bsky.social and supported by an international network of contributors across ten countries!
📄Publication: doi.org/10.1093/nar/...
JASPAR 2026: expansion of transcription factor binding profiles and integration of deep learning models
Abstract. JASPAR (https://jaspar.elixir.no/) is an open-access database that has provided high-quality, manually curated, and non-redundant DNA binding pro
doi.org
December 2, 2025 at 7:53 AM
Proud of JASPAR 2026 release with major expansion of PFM profiles and a new collection of deep learning models interpreted to extract learnt motifs!
Work led by @ievarau.bsky.social and @damlaob.bsky.social w/ @anshulkundaje.bsky.social @wywywa.bsky.social @flowerwhatelse.bsky.social labs & more
Work led by @ievarau.bsky.social and @damlaob.bsky.social w/ @anshulkundaje.bsky.social @wywywa.bsky.social @flowerwhatelse.bsky.social labs & more
Reposted by Anthony Mathelier
Anthony A. Hyman will become EMBL’s next Director General.
He joins EMBL from @mpi-cbg.de in Dresden. He is also Professor of Molecular Biology @tudresden.bsky.social, and was a group leader at EMBL Heidelberg from 1993 to 1999.
www.embl.org/news/people-...
He joins EMBL from @mpi-cbg.de in Dresden. He is also Professor of Molecular Biology @tudresden.bsky.social, and was a group leader at EMBL Heidelberg from 1993 to 1999.
www.embl.org/news/people-...
November 27, 2025 at 1:02 PM
Anthony A. Hyman will become EMBL’s next Director General.
He joins EMBL from @mpi-cbg.de in Dresden. He is also Professor of Molecular Biology @tudresden.bsky.social, and was a group leader at EMBL Heidelberg from 1993 to 1999.
www.embl.org/news/people-...
He joins EMBL from @mpi-cbg.de in Dresden. He is also Professor of Molecular Biology @tudresden.bsky.social, and was a group leader at EMBL Heidelberg from 1993 to 1999.
www.embl.org/news/people-...
Reposted by Anthony Mathelier
I'm guest-editing a collection on "Enhancer-promoter interactions" at Genome Biology. Please send us your exciting stories!
link.springer.com/collections/...
link.springer.com/collections/...
Enhancer-promoter interactions
Genome Biology is calling for submissions to our Collection on enhancer-promoter interactions.
Enhancer–promoter interactions are central to the regulation ...
link.springer.com
November 25, 2025 at 10:55 AM
I'm guest-editing a collection on "Enhancer-promoter interactions" at Genome Biology. Please send us your exciting stories!
link.springer.com/collections/...
link.springer.com/collections/...
Reposted by Anthony Mathelier
We are pleased to announce a new preprint by @mlweilert.bsky.social: “Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs” (www.biorxiv.org/content/10.1...). See summary and longer recap below:
(TLDR; low-affinity motifs matter as pioneers!)
(TLDR; low-affinity motifs matter as pioneers!)
Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs
Low-affinity transcription factor (TF) motifs are an important element of the cis-regulatory code, yet they are notoriously difficult to map and mechanistically incompletely understood, limiting our a...
www.biorxiv.org
November 19, 2025 at 8:57 PM
We are pleased to announce a new preprint by @mlweilert.bsky.social: “Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs” (www.biorxiv.org/content/10.1...). See summary and longer recap below:
(TLDR; low-affinity motifs matter as pioneers!)
(TLDR; low-affinity motifs matter as pioneers!)
Reposted by Anthony Mathelier
(1/12) Excited to present the results of the large-scale benchmarking of DNA motif discovery tools using the Codebook data compendium on poorly studied human transcription factors and the Codebook Motif Explorer: dx.doi.org/10.1101/2024..., mex.autosome.org ⬇️.
November 14, 2024 at 1:04 PM
(1/12) Excited to present the results of the large-scale benchmarking of DNA motif discovery tools using the Codebook data compendium on poorly studied human transcription factors and the Codebook Motif Explorer: dx.doi.org/10.1101/2024..., mex.autosome.org ⬇️.
Reposted by Anthony Mathelier
Our paper on LARGE-scale benchmarking of motif discovery tools is published! nature.com/articles/s42...
It was a long, 7 years long journey, which coordinated efforts of 50+ researchers, proud to be on of them.
More results from Codebook about poorly studied TFs are coming soon.
It was a long, 7 years long journey, which coordinated efforts of 50+ researchers, proud to be on of them.
More results from Codebook about poorly studied TFs are coming soon.
November 17, 2025 at 10:44 AM
Our paper on LARGE-scale benchmarking of motif discovery tools is published! nature.com/articles/s42...
It was a long, 7 years long journey, which coordinated efforts of 50+ researchers, proud to be on of them.
More results from Codebook about poorly studied TFs are coming soon.
It was a long, 7 years long journey, which coordinated efforts of 50+ researchers, proud to be on of them.
More results from Codebook about poorly studied TFs are coming soon.
Reposted by Anthony Mathelier
Great opportunity to join the IGBMC as a Group Leader in Computational Biology ! Happy to discuss it if you like. Please share !
The IGBMC is recruiting a new Computational Biology Group Leader through the ENACT AI Chair for Scientific Discoveries, covering cancer, developmental, and structural biology. Join one of Europe’s leading life science centers!
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
November 13, 2025 at 12:54 PM
Great opportunity to join the IGBMC as a Group Leader in Computational Biology ! Happy to discuss it if you like. Please share !
This recognition by the community through citations truly belongs to all trainees, collaborators, and the community driving our work forward. A recognition of the importance of keeping open resources like JASPAR strong, which depends on shared effort and open scientific values.🙌
🎉 Congratulations to @amathelier.bsky.social for being recognised as being in the top 1% on the world's most highly cited researchers by @clarivate.com!
This highlights the contribution he has made to Biology and Biochemistry over the past 11 years!
@nordicembl.bsky.social @embl.org @uio.no
This highlights the contribution he has made to Biology and Biochemistry over the past 11 years!
@nordicembl.bsky.social @embl.org @uio.no
November 13, 2025 at 8:55 AM
This recognition by the community through citations truly belongs to all trainees, collaborators, and the community driving our work forward. A recognition of the importance of keeping open resources like JASPAR strong, which depends on shared effort and open scientific values.🙌
Reposted by Anthony Mathelier
📜 It's @ncmbm.bsky.social Newsletter time! You can now find out what we have been up to this past month; enjoy the read!
🧷 You can read it here 👉https://pub.dialogapi.no/v/c08f518b-1810-4084-848f-a29ba87d6fd0
@nordicembl.bsky.social @embl.org
🧷 You can read it here 👉https://pub.dialogapi.no/v/c08f518b-1810-4084-848f-a29ba87d6fd0
@nordicembl.bsky.social @embl.org
October 31, 2025 at 7:36 AM
📜 It's @ncmbm.bsky.social Newsletter time! You can now find out what we have been up to this past month; enjoy the read!
🧷 You can read it here 👉https://pub.dialogapi.no/v/c08f518b-1810-4084-848f-a29ba87d6fd0
@nordicembl.bsky.social @embl.org
🧷 You can read it here 👉https://pub.dialogapi.no/v/c08f518b-1810-4084-848f-a29ba87d6fd0
@nordicembl.bsky.social @embl.org