Matthias Flotho
@mflot.bsky.social
PhD candidate at Helmholtz Institute for Pharmaceutical Research Saarland
Pinned
Matthias Flotho
@mflot.bsky.social
· Dec 8
ggdiceplot 1.0.1 is out now!
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
Reposted by Matthias Flotho
We will have our first community meeting of 2026 on Tue, Jan 20, 2026, 11AM CST/ 9AM PST !
Ian Ferenc Diks (@ianfd.bsky.social) will be presenting on SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale.
Ian Ferenc Diks (@ianfd.bsky.social) will be presenting on SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale.
January 19, 2026 at 9:18 PM
We will have our first community meeting of 2026 on Tue, Jan 20, 2026, 11AM CST/ 9AM PST !
Ian Ferenc Diks (@ianfd.bsky.social) will be presenting on SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale.
Ian Ferenc Diks (@ianfd.bsky.social) will be presenting on SingleRust: A High-Performance Toolkit for Single-Cell Data Analysis at Scale.
Reposted by Matthias Flotho
"The target was numbers, and quality was mentioned only in terms of a journal’s prestige, never the work itself."
www.nature.com/articles/d41...
www.nature.com/articles/d41...
I’m going to halve my publication output. You should consider slow science, too
If we don’t slow down, the research enterprise is going to crash, argues Adrian Barnett.
www.nature.com
January 19, 2026 at 1:27 PM
"The target was numbers, and quality was mentioned only in terms of a journal’s prestige, never the work itself."
www.nature.com/articles/d41...
www.nature.com/articles/d41...
Alignoth: portable and interactive visualization of read alignments academic.oup.com/bioinformati... 🧬🖥️🧪
Code (Rust, MIT): github.com/alignoth/ali...
Demo: alignoth.github.io/preview.html
Code (Rust, MIT): github.com/alignoth/ali...
Demo: alignoth.github.io/preview.html
January 16, 2026 at 9:31 AM
Reposted by Matthias Flotho
Check out the latest paper by @carmen-aguilar.bsky.social, which also involved our #HIRI group leader @emmanuel-saliba.bsky.social and his lab. It was recently published in @natmicrobiol.nature.com: doi.org/10.1038/s415...
Congratulations to all authors! 👏🎉
Congratulations to all authors! 👏🎉
January 15, 2026 at 8:51 AM
Check out the latest paper by @carmen-aguilar.bsky.social, which also involved our #HIRI group leader @emmanuel-saliba.bsky.social and his lab. It was recently published in @natmicrobiol.nature.com: doi.org/10.1038/s415...
Congratulations to all authors! 👏🎉
Congratulations to all authors! 👏🎉
The Parkinson's Disease Drug Tolcapone and Analogues are Potent Glycomimetic Lectin Inhibitors of Pseudomonas aeruginosa LecA
doi.org/10.1002/anie...
doi.org/10.1002/anie...
January 8, 2026 at 4:19 PM
The Parkinson's Disease Drug Tolcapone and Analogues are Potent Glycomimetic Lectin Inhibitors of Pseudomonas aeruginosa LecA
doi.org/10.1002/anie...
doi.org/10.1002/anie...
Reposted by Matthias Flotho
Every brain tells a story. What will we learn when we listen?
Together with @uwmedicine.bsky.social, we're embarking on an ambitious mission - building a functional, cellular map of the human brain.
https://alleninstitute.org/news/mapping-the-brain-to-improve-lives/
Together with @uwmedicine.bsky.social, we're embarking on an ambitious mission - building a functional, cellular map of the human brain.
https://alleninstitute.org/news/mapping-the-brain-to-improve-lives/
Mapping the brain to improve lives
A collaborative effort between UW and the Allen Institute is creating a first-of-its-kind brain atlas, paving the way for breakthroughs in brain health.
alleninstitute.org
January 6, 2026 at 3:54 PM
Every brain tells a story. What will we learn when we listen?
Together with @uwmedicine.bsky.social, we're embarking on an ambitious mission - building a functional, cellular map of the human brain.
https://alleninstitute.org/news/mapping-the-brain-to-improve-lives/
Together with @uwmedicine.bsky.social, we're embarking on an ambitious mission - building a functional, cellular map of the human brain.
https://alleninstitute.org/news/mapping-the-brain-to-improve-lives/
Reposted by Matthias Flotho
🧠 CRN Team Kordower developed a co-pathology mouse model combining tau, amyloid-β, & α-synuclein. They show co-pathologies synergistically trigger an amplified neuroimmune response, with expanded CD4+/CD8+ T cells & increased CD68+ microglia.
🔗 Check out the full #preprint: https://bit.ly/4jAHzzl
🔗 Check out the full #preprint: https://bit.ly/4jAHzzl
January 5, 2026 at 2:00 PM
🧠 CRN Team Kordower developed a co-pathology mouse model combining tau, amyloid-β, & α-synuclein. They show co-pathologies synergistically trigger an amplified neuroimmune response, with expanded CD4+/CD8+ T cells & increased CD68+ microglia.
🔗 Check out the full #preprint: https://bit.ly/4jAHzzl
🔗 Check out the full #preprint: https://bit.ly/4jAHzzl
Reposted by Matthias Flotho
ggdiceplot 1.0.1 is out now!
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
December 8, 2025 at 3:51 PM
ggdiceplot 1.0.1 is out now!
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
For anybody working on thermal imaging of faces: The thermal-face-alignment TFAN package has just dropped on pip.
github.com/openscivisio...
#computer-vision #thermal-imaging #thermal-recognition #thermal-landmarks #face-alignment
github.com/openscivisio...
#computer-vision #thermal-imaging #thermal-recognition #thermal-landmarks #face-alignment
December 20, 2025 at 2:56 PM
For anybody working on thermal imaging of faces: The thermal-face-alignment TFAN package has just dropped on pip.
github.com/openscivisio...
#computer-vision #thermal-imaging #thermal-recognition #thermal-landmarks #face-alignment
github.com/openscivisio...
#computer-vision #thermal-imaging #thermal-recognition #thermal-landmarks #face-alignment
Reposted by Matthias Flotho
Copula modeling of gene coexpression in single-cell RNA sequencing data https://www.biorxiv.org/content/10.64898/2025.12.04.692380v1
December 9, 2025 at 6:47 PM
Copula modeling of gene coexpression in single-cell RNA sequencing data https://www.biorxiv.org/content/10.64898/2025.12.04.692380v1
Reposted by Matthias Flotho
How does a bacterial small RNA evolve new functions?
Our new study reveals the stepwise evolutionary journey of UhpU, a 3′UTR-derived sRNA in E. coli and relatives. It evolved from a metabolically-focused regulator to one with expanded targets and biogenesis manner.
www.pnas.org/doi/10.1073/...
Our new study reveals the stepwise evolutionary journey of UhpU, a 3′UTR-derived sRNA in E. coli and relatives. It evolved from a metabolically-focused regulator to one with expanded targets and biogenesis manner.
www.pnas.org/doi/10.1073/...
December 4, 2025 at 7:50 PM
How does a bacterial small RNA evolve new functions?
Our new study reveals the stepwise evolutionary journey of UhpU, a 3′UTR-derived sRNA in E. coli and relatives. It evolved from a metabolically-focused regulator to one with expanded targets and biogenesis manner.
www.pnas.org/doi/10.1073/...
Our new study reveals the stepwise evolutionary journey of UhpU, a 3′UTR-derived sRNA in E. coli and relatives. It evolved from a metabolically-focused regulator to one with expanded targets and biogenesis manner.
www.pnas.org/doi/10.1073/...
ggdiceplot 1.0.1 is out now!
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
December 8, 2025 at 3:51 PM
ggdiceplot 1.0.1 is out now!
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
From today, {diceplot} is deprecated and treated as the legacy implementation, all new development and features will go into {ggdiceplot}.
Repo: github.com/maflot/ggdic...
Docs: dice-and-domino-plot.readthedocs.io/en/latest/
Paper: tinyurl.com/ggdiceplot
#rstats #ggplot2
Reposted by Matthias Flotho
Approximately 96% of the images from some space observatories in low Earth orbit could be tainted over the next decade due to light contamination from satellites, according to an analysis in Nature. go.nature.com/3Y7eTUA 🔭 🧪
December 4, 2025 at 2:17 PM
Approximately 96% of the images from some space observatories in low Earth orbit could be tainted over the next decade due to light contamination from satellites, according to an analysis in Nature. go.nature.com/3Y7eTUA 🔭 🧪
Reposted by Matthias Flotho
THREAD
One Year of tracking research communication on @bsky.app
This time last year we officially added the Bluesky social platform to the places where we track research communication and article sharing.
Here are some of the most viral articles that gained traction in the last 12 months.
1/14
One Year of tracking research communication on @bsky.app
This time last year we officially added the Bluesky social platform to the places where we track research communication and article sharing.
Here are some of the most viral articles that gained traction in the last 12 months.
1/14
December 3, 2025 at 12:27 PM
THREAD
One Year of tracking research communication on @bsky.app
This time last year we officially added the Bluesky social platform to the places where we track research communication and article sharing.
Here are some of the most viral articles that gained traction in the last 12 months.
1/14
One Year of tracking research communication on @bsky.app
This time last year we officially added the Bluesky social platform to the places where we track research communication and article sharing.
Here are some of the most viral articles that gained traction in the last 12 months.
1/14
Reposted by Matthias Flotho
"Runctitiononal features"? "Medical fymblal"? "1 Tol Line storee"? This gets worse the longer you look at it. But it's got to be good, because it was published in Nature Scientific Reports last week: www.nature.com/articles/s41... h/t @asa.tsbalans.se
November 27, 2025 at 9:30 AM
"Runctitiononal features"? "Medical fymblal"? "1 Tol Line storee"? This gets worse the longer you look at it. But it's got to be good, because it was published in Nature Scientific Reports last week: www.nature.com/articles/s41... h/t @asa.tsbalans.se
Reposted by Matthias Flotho
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.
You can find it at gitlab (gitlab.com/rahmannlab/c...) or install it via PyPI or Bioconda.
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
doi.org
November 27, 2025 at 11:27 AM
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.
You can find it at gitlab (gitlab.com/rahmannlab/c...) or install it via PyPI or Bioconda.
Just out:
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
Abstract. Single-cell transcriptomic studies of peripheral blood mononuclear cells (PBMCs) offer valuable insights into immune states across diverse biolog
doi.org
November 24, 2025 at 2:10 PM
Just out:
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
PBMCpedia: a harmonized PBMC scRNA-seq database with unified mapping and enhanced celltype annotation
doi.org/10.1093/nar/...
#openscience #scRNAseq
Reposted by Matthias Flotho
💥 Fewer than 3,000 scientists worldwide are working on antibiotic discovery, and progress is slowing.
We need bold action to develop new antibiotics that are both innovative and accessible to everyone, everywhere.
That’s what drives GARDP’s DER programme.
This is BIG.
#WAAW2025 #AMR #ThisIsBig
We need bold action to develop new antibiotics that are both innovative and accessible to everyone, everywhere.
That’s what drives GARDP’s DER programme.
This is BIG.
#WAAW2025 #AMR #ThisIsBig
November 23, 2025 at 12:59 PM
💥 Fewer than 3,000 scientists worldwide are working on antibiotic discovery, and progress is slowing.
We need bold action to develop new antibiotics that are both innovative and accessible to everyone, everywhere.
That’s what drives GARDP’s DER programme.
This is BIG.
#WAAW2025 #AMR #ThisIsBig
We need bold action to develop new antibiotics that are both innovative and accessible to everyone, everywhere.
That’s what drives GARDP’s DER programme.
This is BIG.
#WAAW2025 #AMR #ThisIsBig
Reposted by Matthias Flotho
⏰ tomorrow, Nov 18, 5pm Berlin/4pm London
“Data Vis for Cancer Patient Education“ - a #DataVis #BioVis talk
Link & Abstract: alt-text and also:
biovis.net/2025/meetup/ (right under picture)
“Data Vis for Cancer Patient Education“ - a #DataVis #BioVis talk
Link & Abstract: alt-text and also:
biovis.net/2025/meetup/ (right under picture)
November 18, 2025 at 9:53 AM
⏰ tomorrow, Nov 18, 5pm Berlin/4pm London
“Data Vis for Cancer Patient Education“ - a #DataVis #BioVis talk
Link & Abstract: alt-text and also:
biovis.net/2025/meetup/ (right under picture)
“Data Vis for Cancer Patient Education“ - a #DataVis #BioVis talk
Link & Abstract: alt-text and also:
biovis.net/2025/meetup/ (right under picture)
Reposted by Matthias Flotho
The Hektoria Glacier on the Antarctic Peninsula retreated by at least 8 km in two months, a rate nearly 10 times faster than previously measured for a grounded glacier, according to a study in Nature Geoscience. go.nature.com/4nETBYJ ⚒️ 🧪
November 13, 2025 at 2:29 AM
The Hektoria Glacier on the Antarctic Peninsula retreated by at least 8 km in two months, a rate nearly 10 times faster than previously measured for a grounded glacier, according to a study in Nature Geoscience. go.nature.com/4nETBYJ ⚒️ 🧪
Reposted by Matthias Flotho
Chaos is coming for scholarly publishing
#AcademicPublishing #WCRI2026 #WCRI
www.researchprofessionalnews.com/rr-news-uk-v...
#AcademicPublishing #WCRI2026 #WCRI
www.researchprofessionalnews.com/rr-news-uk-v...
Chaos is coming for scholarly publishing - Research Professional News
Buckling of commercial models alongside maturing of community-led efforts promises major shifts, says Caroline Edwards
www.researchprofessionalnews.com
November 13, 2025 at 3:37 AM
Chaos is coming for scholarly publishing
#AcademicPublishing #WCRI2026 #WCRI
www.researchprofessionalnews.com/rr-news-uk-v...
#AcademicPublishing #WCRI2026 #WCRI
www.researchprofessionalnews.com/rr-news-uk-v...
Reposted by Matthias Flotho
piRNA-directed DNA methylation may not be a mammalian invention, but can already be found in the germline of axolotl salamanders
Donal O’Carroll and coworkers
www.embopress.org/doi/full/10....
Donal O’Carroll and coworkers
www.embopress.org/doi/full/10....
November 13, 2025 at 11:54 AM
piRNA-directed DNA methylation may not be a mammalian invention, but can already be found in the germline of axolotl salamanders
Donal O’Carroll and coworkers
www.embopress.org/doi/full/10....
Donal O’Carroll and coworkers
www.embopress.org/doi/full/10....
Reposted by Matthias Flotho
Here is our Exxon study in Science, with @naomioreskes.bsky.social and @geoffreysupran.bsky.social !
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Assessing ExxonMobil’s global warming projections
ExxonMobil’s own climate models showed that fossil fuel use would cause climate warming.
www.science.org
November 3, 2025 at 3:34 PM
Here is our Exxon study in Science, with @naomioreskes.bsky.social and @geoffreysupran.bsky.social !
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
November 3, 2025 at 4:22 PM
October 27, 2025 at 2:18 PM