Gregor Rot 🌈
@grexor.bsky.social
Bioinformatics of RNA, splicing, APA, drug design, Full Stack WebDev
🏡 grexor.github.io
📚 pubscan.expressrna.org/gregor_rot
🏡 grexor.github.io
📚 pubscan.expressrna.org/gregor_rot
Pinned
Gregor Rot 🌈
@grexor.bsky.social
· Oct 7
🚀 pubScan v2 is live!
What’s new:
📱 Mobile-friendly design
⚡ 5x faster thanks to our new SQLite backend
🛠️ Fully open source
Dive into your co-authorship network today:
🔗 pubscan.expressrna.org
Like it? Share and repost :-)
#pubscan #coauthorship #network #bioinformatics
What’s new:
📱 Mobile-friendly design
⚡ 5x faster thanks to our new SQLite backend
🛠️ Fully open source
Dive into your co-authorship network today:
🔗 pubscan.expressrna.org
Like it? Share and repost :-)
#pubscan #coauthorship #network #bioinformatics
Reposted by Gregor Rot 🌈
RNA stability enhancers for durable base-modified mRNA therapeutics. #RNAstability #mRNAtherapeutics @natbiotech.nature.com
www.nature.com/articles/s41...
www.nature.com/articles/s41...
November 8, 2025 at 4:01 PM
RNA stability enhancers for durable base-modified mRNA therapeutics. #RNAstability #mRNAtherapeutics @natbiotech.nature.com
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Gregor Rot 🌈
DESpace2: detection of differential spatial patterns in spatial omics data. #SpatialOmics #DifferentialSpatialPatterns #scRNAseq #Genomics #Bioinformatics @biorxivpreprint.bsky.social
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
DESpace2: detection of differential spatial patterns in spatial omics data
Spatially resolved transcriptomics (SRT) enables the investigation of mRNA expression in a spatial context. While several SRT analysis frameworks have been developed, the vast majority of them focus…
www.biorxiv.org
November 8, 2025 at 6:05 PM
DESpace2: detection of differential spatial patterns in spatial omics data. #SpatialOmics #DifferentialSpatialPatterns #scRNAseq #Genomics #Bioinformatics @biorxivpreprint.bsky.social
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Gregor Rot 🌈
Hot off the press from the RTI: TDP-43-dependent mis-splicing of KCNQ2 triggers intrinsic neuronal hyperexcitability in ALS/FTD
buff.ly/X23QYQI #RNA #RNATherapeutics
buff.ly/X23QYQI #RNA #RNATherapeutics
TDP-43-dependent mis-splicing of KCNQ2 triggers intrinsic neuronal hyperexcitability in ALS/FTD - PubMed
Motor neuron hyperexcitability is a broadly observed yet poorly understood feature of amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). Nuclear depletion and cytoplasmic aggregation...
buff.ly
November 2, 2025 at 6:02 PM
Hot off the press from the RTI: TDP-43-dependent mis-splicing of KCNQ2 triggers intrinsic neuronal hyperexcitability in ALS/FTD
buff.ly/X23QYQI #RNA #RNATherapeutics
buff.ly/X23QYQI #RNA #RNATherapeutics
Zurich government rejects proposal to take in Gaza children
www.swissinfo.ch/eng/foreign-...
UBS bank posts $2.5 billion Q3 profit
www.swissinfo.ch/eng/various/...
www.swissinfo.ch/eng/foreign-...
UBS bank posts $2.5 billion Q3 profit
www.swissinfo.ch/eng/various/...
October 31, 2025 at 9:27 AM
Zurich government rejects proposal to take in Gaza children
www.swissinfo.ch/eng/foreign-...
UBS bank posts $2.5 billion Q3 profit
www.swissinfo.ch/eng/various/...
www.swissinfo.ch/eng/foreign-...
UBS bank posts $2.5 billion Q3 profit
www.swissinfo.ch/eng/various/...
Reposted by Gregor Rot 🌈
Exciting month for the study of TDP-43 in neurodegenerative disease and alternative polyadenylation (APA).
Overview of 2 new studies published in Nature Neuroscience by Bryce-Smith et al. and Zeng et al.:
www.nature.com/articles/s41...
Overview of 2 new studies published in Nature Neuroscience by Bryce-Smith et al. and Zeng et al.:
www.nature.com/articles/s41...
TDP-43 loss brings RNA to a twist ending - Nature Neuroscience
In amyotrophic lateral sclerosis (ALS), nuclear depletion and cytoplasmic aggregation of the RNA-binding protein TDP-43 cause widespread dysregulation of mRNA splicing. Two recent studies have now rev...
www.nature.com
October 24, 2025 at 2:10 PM
Exciting month for the study of TDP-43 in neurodegenerative disease and alternative polyadenylation (APA).
Overview of 2 new studies published in Nature Neuroscience by Bryce-Smith et al. and Zeng et al.:
www.nature.com/articles/s41...
Overview of 2 new studies published in Nature Neuroscience by Bryce-Smith et al. and Zeng et al.:
www.nature.com/articles/s41...
I spent a romantic Wednesday evening with Javascript figuring out attaching code via "a href" for disappearing / appearing elements on mobile is not a good idea. Charming!
But now also "x" on the search field works on mobile for pubscan.expressrna.org :-)
But now also "x" on the search field works on mobile for pubscan.expressrna.org :-)
October 22, 2025 at 7:46 PM
I spent a romantic Wednesday evening with Javascript figuring out attaching code via "a href" for disappearing / appearing elements on mobile is not a good idea. Charming!
But now also "x" on the search field works on mobile for pubscan.expressrna.org :-)
But now also "x" on the search field works on mobile for pubscan.expressrna.org :-)
Reposted by Gregor Rot 🌈
Ready to start your own independent research programme?
We're inviting applications for early career group leaders in all areas of biology and biomedicine @crick.ac.uk
Apply by 27 Nov 2025:
www.crick.ac.uk/careers-stud...
#EarlyCareerResearchers #GroupLeader #ScienceCareers
We're inviting applications for early career group leaders in all areas of biology and biomedicine @crick.ac.uk
Apply by 27 Nov 2025:
www.crick.ac.uk/careers-stud...
#EarlyCareerResearchers #GroupLeader #ScienceCareers
October 9, 2025 at 3:01 PM
Ready to start your own independent research programme?
We're inviting applications for early career group leaders in all areas of biology and biomedicine @crick.ac.uk
Apply by 27 Nov 2025:
www.crick.ac.uk/careers-stud...
#EarlyCareerResearchers #GroupLeader #ScienceCareers
We're inviting applications for early career group leaders in all areas of biology and biomedicine @crick.ac.uk
Apply by 27 Nov 2025:
www.crick.ac.uk/careers-stud...
#EarlyCareerResearchers #GroupLeader #ScienceCareers
Reposted by Gregor Rot 🌈
We're now recruiting early career group leaders at the Crick to lead ambitious research programmes and explore bold scientific questions.
Hear our Director, Edith Heard, explain why the Crick is a unique place for curiosity-driven research.
Apply now ➡️ www.crick.ac.uk/careers-stud...
Hear our Director, Edith Heard, explain why the Crick is a unique place for curiosity-driven research.
Apply now ➡️ www.crick.ac.uk/careers-stud...
October 9, 2025 at 2:06 PM
We're now recruiting early career group leaders at the Crick to lead ambitious research programmes and explore bold scientific questions.
Hear our Director, Edith Heard, explain why the Crick is a unique place for curiosity-driven research.
Apply now ➡️ www.crick.ac.uk/careers-stud...
Hear our Director, Edith Heard, explain why the Crick is a unique place for curiosity-driven research.
Apply now ➡️ www.crick.ac.uk/careers-stud...
🚀 pubScan v2 is live!
What’s new:
📱 Mobile-friendly design
⚡ 5x faster thanks to our new SQLite backend
🛠️ Fully open source
Dive into your co-authorship network today:
🔗 pubscan.expressrna.org
Like it? Share and repost :-)
#pubscan #coauthorship #network #bioinformatics
What’s new:
📱 Mobile-friendly design
⚡ 5x faster thanks to our new SQLite backend
🛠️ Fully open source
Dive into your co-authorship network today:
🔗 pubscan.expressrna.org
Like it? Share and repost :-)
#pubscan #coauthorship #network #bioinformatics
October 7, 2025 at 12:34 PM
🚀 pubScan v2 is live!
What’s new:
📱 Mobile-friendly design
⚡ 5x faster thanks to our new SQLite backend
🛠️ Fully open source
Dive into your co-authorship network today:
🔗 pubscan.expressrna.org
Like it? Share and repost :-)
#pubscan #coauthorship #network #bioinformatics
What’s new:
📱 Mobile-friendly design
⚡ 5x faster thanks to our new SQLite backend
🛠️ Fully open source
Dive into your co-authorship network today:
🔗 pubscan.expressrna.org
Like it? Share and repost :-)
#pubscan #coauthorship #network #bioinformatics
Reposted by Gregor Rot 🌈
NEW EPISODE: Can we cure cancer?
Join our expert panellists as they answer audience questions about the future of cancer research and treatment.
Listen on your favourite podcast platform:
lnk.to/AQOSCancerBB
Join our expert panellists as they answer audience questions about the future of cancer research and treatment.
Listen on your favourite podcast platform:
lnk.to/AQOSCancerBB
September 24, 2025 at 5:22 AM
NEW EPISODE: Can we cure cancer?
Join our expert panellists as they answer audience questions about the future of cancer research and treatment.
Listen on your favourite podcast platform:
lnk.to/AQOSCancerBB
Join our expert panellists as they answer audience questions about the future of cancer research and treatment.
Listen on your favourite podcast platform:
lnk.to/AQOSCancerBB
Reposted by Gregor Rot 🌈
🚀 Spatial Transcriptomics (Imaging) + Spatial-centric analyses by @helucro.bsky.social : the way to truly interrogate tissues!!!
📖 Read our pre-print on human tonsil architecture (full of tonsiLove ♥️) here: doi.org/10.1101/2025...
📖 Read our pre-print on human tonsil architecture (full of tonsiLove ♥️) here: doi.org/10.1101/2025...
A transcriptional map of human tonsil architecture: beyond the sum of (single cell) parts
The tonsil is a highly compartmentalized organ in which different microanatomical structures orchestrate designated (immune) functions. We use this already well-studied tissue to survey spatial molecu...
doi.org
September 15, 2025 at 2:40 PM
🚀 Spatial Transcriptomics (Imaging) + Spatial-centric analyses by @helucro.bsky.social : the way to truly interrogate tissues!!!
📖 Read our pre-print on human tonsil architecture (full of tonsiLove ♥️) here: doi.org/10.1101/2025...
📖 Read our pre-print on human tonsil architecture (full of tonsiLove ♥️) here: doi.org/10.1101/2025...
A UN commission of inquiry concluded on Tuesday that Israel had committed genocide in Gaza and that top Israeli officials including the prime minister, Benjamin Netanyahu, had incited these acts.
www.theguardian.com/world/2025/s...
www.theguardian.com/world/2025/s...
Israel has committed genocide in Gaza, says UN inquiry
Commission’s 72-page legal analysis cites examples including scale of killings, aid blockages and forced displacement
www.theguardian.com
September 16, 2025 at 7:25 AM
A UN commission of inquiry concluded on Tuesday that Israel had committed genocide in Gaza and that top Israeli officials including the prime minister, Benjamin Netanyahu, had incited these acts.
www.theguardian.com/world/2025/s...
www.theguardian.com/world/2025/s...
Universities around the world cut ties with Israeli academia over Gaza war
www.theguardian.com/world/2025/s...
www.theguardian.com/world/2025/s...
Universities around the world cut ties with Israeli academia over Gaza war
Educational bodies from Europe to South America are boycotting Israeli institutions, though Universities UK said it did not support the action
www.theguardian.com
September 13, 2025 at 3:22 PM
Universities around the world cut ties with Israeli academia over Gaza war
www.theguardian.com/world/2025/s...
www.theguardian.com/world/2025/s...
Reposted by Gregor Rot 🌈
📣The Turco group is seeking a computational biologist to analyze large omics datasets. Work on cutting-edge 3D organoid models of the human placenta and be embedded in our Computational Biology Platform (part of @sib.swiss). Apply here: www.fmi.ch/education-ca...
September 12, 2025 at 7:02 AM
📣The Turco group is seeking a computational biologist to analyze large omics datasets. Work on cutting-edge 3D organoid models of the human placenta and be embedded in our Computational Biology Platform (part of @sib.swiss). Apply here: www.fmi.ch/education-ca...
Reposted by Gregor Rot 🌈
Want to enhance your image analysis skills with napari?
We’re running a two-day training event on how to use napari to effectively analyse your bioimaging data.
🕒 Applications close on 15 September.
Learn more and apply 👇
www.crick.ac.uk/whats-on/cbi...
We’re running a two-day training event on how to use napari to effectively analyse your bioimaging data.
🕒 Applications close on 15 September.
Learn more and apply 👇
www.crick.ac.uk/whats-on/cbi...
CBIAS napari workshop 2025
www.crick.ac.uk
September 12, 2025 at 10:08 AM
Want to enhance your image analysis skills with napari?
We’re running a two-day training event on how to use napari to effectively analyse your bioimaging data.
🕒 Applications close on 15 September.
Learn more and apply 👇
www.crick.ac.uk/whats-on/cbi...
We’re running a two-day training event on how to use napari to effectively analyse your bioimaging data.
🕒 Applications close on 15 September.
Learn more and apply 👇
www.crick.ac.uk/whats-on/cbi...
Reposted by Gregor Rot 🌈
The power of RNA sequencing in molecular oncology. #RNAseq #MolecularOncology Genomics @natmed.nature.com 🧬
www.nature.com/articles/s41...
www.nature.com/articles/s41...
September 12, 2025 at 10:30 AM
The power of RNA sequencing in molecular oncology. #RNAseq #MolecularOncology Genomics @natmed.nature.com 🧬
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Gregor Rot 🌈
MoGAAAP: A modular Snakemake workflow for automated genome assembly and annotation with quality assessment. #GenomeAssembly #GenomeAnnotation #GenomeQuality #Genomics #Bioinformatics @biorxiv-bioinfo.bsky.social 🧬 🖥️
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
September 8, 2025 at 5:05 PM
MoGAAAP: A modular Snakemake workflow for automated genome assembly and annotation with quality assessment. #GenomeAssembly #GenomeAnnotation #GenomeQuality #Genomics #Bioinformatics @biorxiv-bioinfo.bsky.social 🧬 🖥️
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Beautiful app.flow.bio #flowbio web-app and Nextflow backend, this is how web-dev should be done in life sciences, very nice!
September 5, 2025 at 2:51 PM
Beautiful app.flow.bio #flowbio web-app and Nextflow backend, this is how web-dev should be done in life sciences, very nice!
Reposted by Gregor Rot 🌈
A spatial long-read approach at near-single-cell resolution reveals developmental regulation of splicing and polyadenylation sites in distinct cortical layers and cell types. #LongReads #SingleCell #Spatialtranscriptomics #IsoSeq #PolyA @natcomms.nature.com
www.nature.com/articles/s41...
www.nature.com/articles/s41...
September 4, 2025 at 3:02 PM
A spatial long-read approach at near-single-cell resolution reveals developmental regulation of splicing and polyadenylation sites in distinct cortical layers and cell types. #LongReads #SingleCell #Spatialtranscriptomics #IsoSeq #PolyA @natcomms.nature.com
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Gregor Rot 🌈
How diverse are E. coli capsules? How are they linked to ecology and disease? Find out with > 25,000 genomes and MAGs including undersampled environments and hosts from all over the world.
Great genomics - glycobiology synergy in Sunagawa and Slack groups at ETH!
www.biorxiv.org/content/10.1...
🧪🧫🔬
Great genomics - glycobiology synergy in Sunagawa and Slack groups at ETH!
www.biorxiv.org/content/10.1...
🧪🧫🔬
The natural diversity of E. coli transporter-dependent capsules
Serotyping of bacteria using genomic information ( in silico serotyping) has increasingly replaced serology. However, the E. coli capsule serotyping system has been largely abandoned since the 1990s, ...
www.biorxiv.org
August 15, 2025 at 1:55 PM
How diverse are E. coli capsules? How are they linked to ecology and disease? Find out with > 25,000 genomes and MAGs including undersampled environments and hosts from all over the world.
Great genomics - glycobiology synergy in Sunagawa and Slack groups at ETH!
www.biorxiv.org/content/10.1...
🧪🧫🔬
Great genomics - glycobiology synergy in Sunagawa and Slack groups at ETH!
www.biorxiv.org/content/10.1...
🧪🧫🔬
Reposted by Gregor Rot 🌈
Widespread 3′ UTR splicing regulates expression of oncogene transcripts through multiple mechanisms. #3UTRsplicing #TranscriptRegulation #Genomics @narjournal.bsky.social
academic.oup.com/nar/article/...
academic.oup.com/nar/article/...
August 10, 2025 at 5:05 PM
Widespread 3′ UTR splicing regulates expression of oncogene transcripts through multiple mechanisms. #3UTRsplicing #TranscriptRegulation #Genomics @narjournal.bsky.social
academic.oup.com/nar/article/...
academic.oup.com/nar/article/...
"my garden
in the sun and in the rain
and in the day and in the night
pain is a flower
pain is flowers
blooming all the time."
- Charles Bukowski
in the sun and in the rain
and in the day and in the night
pain is a flower
pain is flowers
blooming all the time."
- Charles Bukowski
July 24, 2025 at 6:57 AM
"my garden
in the sun and in the rain
and in the day and in the night
pain is a flower
pain is flowers
blooming all the time."
- Charles Bukowski
in the sun and in the rain
and in the day and in the night
pain is a flower
pain is flowers
blooming all the time."
- Charles Bukowski
Congrats everyone, such a tour de force!
"The MicrobeAtlas database: Global trends and insights into Earth's microbial ecosystems"
www.biorxiv.org/content/10.1...
"The MicrobeAtlas database: Global trends and insights into Earth's microbial ecosystems"
www.biorxiv.org/content/10.1...
The MicrobeAtlas database: Global trends and insights into Earth's microbial ecosystems
Environmental DNA sequencing has revolutionized our understanding of microbial diversity and ecology. Microbiomes have now been sequenced across the entire planet - from the deep subsurface to the mou...
www.biorxiv.org
July 18, 2025 at 8:14 PM
Congrats everyone, such a tour de force!
"The MicrobeAtlas database: Global trends and insights into Earth's microbial ecosystems"
www.biorxiv.org/content/10.1...
"The MicrobeAtlas database: Global trends and insights into Earth's microbial ecosystems"
www.biorxiv.org/content/10.1...