Michael Love
@mikelove.bsky.social
Genetics, bioinformatics, comp bio, statistics, data science, open source, open science!
Reposted by Michael Love
The GenomicRanges (github.com/BiocPy/GenomicRanges) package for Python got a major speed boost (v0.7.0+) thanks to Aaron’s blazing-fast C++ nclist interval indexing!
#Bioinformatics #Genomics #Bioconductor
#Bioinformatics #Genomics #Bioconductor
GitHub - BiocPy/GenomicRanges: Container class to represent genomic locations and support genomic analysis
Container class to represent genomic locations and support genomic analysis - BiocPy/GenomicRanges
github.com
August 25, 2025 at 3:56 AM
The GenomicRanges (github.com/BiocPy/GenomicRanges) package for Python got a major speed boost (v0.7.0+) thanks to Aaron’s blazing-fast C++ nclist interval indexing!
#Bioinformatics #Genomics #Bioconductor
#Bioinformatics #Genomics #Bioconductor
Reposted by Michael Love
I am very excited to share this book! It has been so much to collaborate on the project. We hope you find it useful!
Many people hours, calls and messages later: OSTA is now “in (pre)print”, though the real thing lives at bioconductor.org/books/OSTA.
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
November 21, 2025 at 10:11 PM
I am very excited to share this book! It has been so much to collaborate on the project. We hope you find it useful!
Reposted by Michael Love
We are excited to share our online book and preprint on “Orchestrating Spatial Transcriptomics Analysis with Bioconductor”!
Many people hours, calls and messages later: OSTA is now “in (pre)print”, though the real thing lives at bioconductor.org/books/OSTA.
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
November 22, 2025 at 12:38 PM
We are excited to share our online book and preprint on “Orchestrating Spatial Transcriptomics Analysis with Bioconductor”!
Reposted by Michael Love
Many people hours, calls and messages later: OSTA is now “in (pre)print”, though the real thing lives at bioconductor.org/books/OSTA.
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
November 21, 2025 at 5:31 PM
Many people hours, calls and messages later: OSTA is now “in (pre)print”, though the real thing lives at bioconductor.org/books/OSTA.
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
Check it out, get in touch. We welcome any feedback, suggestions, wishes (& contributions).
It’s been a joy working with you @estellayixingdong.bsky.social!
Reposted by Michael Love
Representing EuroBioC2026 at the @abacbs.bsky.social Conference this week.
The next European @bioconductor.bsky.social Conference will be in Turku, Finland!
#ABACBS2025
#EuroBioC2026
The next European @bioconductor.bsky.social Conference will be in Turku, Finland!
#ABACBS2025
#EuroBioC2026
November 25, 2025 at 10:33 PM
Representing EuroBioC2026 at the @abacbs.bsky.social Conference this week.
The next European @bioconductor.bsky.social Conference will be in Turku, Finland!
#ABACBS2025
#EuroBioC2026
The next European @bioconductor.bsky.social Conference will be in Turku, Finland!
#ABACBS2025
#EuroBioC2026
Reposted by Michael Love
Publicly available, reference datasets are a bioinformatician's best friend! Find out more about the LongBench resource at poster 17 #abacbs2025 from @mritchieau.bsky.social @wehi-research.bsky.social
November 25, 2025 at 11:39 PM
Publicly available, reference datasets are a bioinformatician's best friend! Find out more about the LongBench resource at poster 17 #abacbs2025 from @mritchieau.bsky.social @wehi-research.bsky.social
Reposted by Michael Love
🚨RA/PhD position available in evolutionary neurobiology 🚨
Working on a deep dive into circuit changes during mushroom body expansion in Heliconius butterflies @camzoology.bsky.social
- employment benefits
- 4 years funding
- 1000% fun
Deadline: 14/1/2026
Details:
www.cam.ac.uk/jobs/researc...
Working on a deep dive into circuit changes during mushroom body expansion in Heliconius butterflies @camzoology.bsky.social
- employment benefits
- 4 years funding
- 1000% fun
Deadline: 14/1/2026
Details:
www.cam.ac.uk/jobs/researc...
November 21, 2025 at 2:31 PM
🚨RA/PhD position available in evolutionary neurobiology 🚨
Working on a deep dive into circuit changes during mushroom body expansion in Heliconius butterflies @camzoology.bsky.social
- employment benefits
- 4 years funding
- 1000% fun
Deadline: 14/1/2026
Details:
www.cam.ac.uk/jobs/researc...
Working on a deep dive into circuit changes during mushroom body expansion in Heliconius butterflies @camzoology.bsky.social
- employment benefits
- 4 years funding
- 1000% fun
Deadline: 14/1/2026
Details:
www.cam.ac.uk/jobs/researc...
Reposted by Michael Love
Be authentic.
1/Articulated, coherent explanation of why you're interested in that lab's particular focus: extra points. This is rare.
2/Statement that you're just interested in the general area: no extra points but plenty get hired with just this.
3/Word salad that looks like BS: negative points
1/Articulated, coherent explanation of why you're interested in that lab's particular focus: extra points. This is rare.
2/Statement that you're just interested in the general area: no extra points but plenty get hired with just this.
3/Word salad that looks like BS: negative points
November 25, 2025 at 5:36 PM
Be authentic.
1/Articulated, coherent explanation of why you're interested in that lab's particular focus: extra points. This is rare.
2/Statement that you're just interested in the general area: no extra points but plenty get hired with just this.
3/Word salad that looks like BS: negative points
1/Articulated, coherent explanation of why you're interested in that lab's particular focus: extra points. This is rare.
2/Statement that you're just interested in the general area: no extra points but plenty get hired with just this.
3/Word salad that looks like BS: negative points
Reposted by Michael Love
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 Michael Love
Happy to see this out w/ @epsteinstatgen.bsky.social and @davecutler.bsky.social (paper: doi.org/10.1093/bioi...)! We tackled the problem of identifying dysregulated pathways (i.e. differentially co-expressed) in gene expression studies. We show that differential co-expression arises ...
November 25, 2025 at 10:05 AM
Happy to see this out w/ @epsteinstatgen.bsky.social and @davecutler.bsky.social (paper: doi.org/10.1093/bioi...)! We tackled the problem of identifying dysregulated pathways (i.e. differentially co-expressed) in gene expression studies. We show that differential co-expression arises ...
Reposted by Michael Love
Back from #scverse25 and feeling inspired by what @scverse.bsky.social has achieved over the last years. Impressive tools, a vibrant community and we even had a reunion with our two alumni Danila and Max Frank.
We also presented our latest findings from the lab 👇
We also presented our latest findings from the lab 👇
November 25, 2025 at 9:01 AM
Back from #scverse25 and feeling inspired by what @scverse.bsky.social has achieved over the last years. Impressive tools, a vibrant community and we even had a reunion with our two alumni Danila and Max Frank.
We also presented our latest findings from the lab 👇
We also presented our latest findings from the lab 👇
Reposted by Michael Love
It is unprecedented that 47 medical and public health organizations should come together to condemn the actions of the CDC.
www.apha.org/news-and-med...
1. American Academy of Pediatrics
2. Academic Pediatric Association
3. American Academy of Family Physicians ....
www.apha.org/news-and-med...
1. American Academy of Pediatrics
2. Academic Pediatric Association
3. American Academy of Family Physicians ....
Statement on CDC autism website changes
Our organizations, representing autistic individuals, their families, medical professionals and public health workers, are alarmed that the Centers for Disease Control and Prevention is promoting the ...
www.apha.org
November 23, 2025 at 5:59 PM
It is unprecedented that 47 medical and public health organizations should come together to condemn the actions of the CDC.
www.apha.org/news-and-med...
1. American Academy of Pediatrics
2. Academic Pediatric Association
3. American Academy of Family Physicians ....
www.apha.org/news-and-med...
1. American Academy of Pediatrics
2. Academic Pediatric Association
3. American Academy of Family Physicians ....
Reposted by Michael Love
Such a fantastic resource by @kuhlwilm.bsky.social's lab. We’re using this catalog in half our projects
www.nature.com/articles/s41...
www.nature.com/articles/s41...
A curated dataset of great ape genome diversity - Scientific Data
Scientific Data - A curated dataset of great ape genome diversity
www.nature.com
November 24, 2025 at 7:12 AM
Such a fantastic resource by @kuhlwilm.bsky.social's lab. We’re using this catalog in half our projects
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Michael Love
Students applying for grad school, or reaching out to professors. I have an important piece of advice for you: STOP DOING THIS 👇 (a thread) #STEM #PhD #gradschool #academictips
November 21, 2025 at 9:53 PM
Students applying for grad school, or reaching out to professors. I have an important piece of advice for you: STOP DOING THIS 👇 (a thread) #STEM #PhD #gradschool #academictips
Reposted by Michael Love
Reposted by Michael Love
We're looking for a post-doc to support target discovery in lymphoma using single-cell and spatial 'omics modalities.
You will be embedded in our Discovery Statistics organization, and supported by myself and colleagues. Feel free to reach out for any additional information.
tinyurl.com/36uyca7f
You will be embedded in our Discovery Statistics organization, and supported by myself and colleagues. Feel free to reach out for any additional information.
tinyurl.com/36uyca7f
Post Doc PD DD PCCD
At Johnson & Johnson, we believe health is everything. Our strength in healthcare innovation empowers us to build a world where complex diseases are prevented, treated, and cured, where treatments...
tinyurl.com
November 24, 2025 at 8:20 AM
We're looking for a post-doc to support target discovery in lymphoma using single-cell and spatial 'omics modalities.
You will be embedded in our Discovery Statistics organization, and supported by myself and colleagues. Feel free to reach out for any additional information.
tinyurl.com/36uyca7f
You will be embedded in our Discovery Statistics organization, and supported by myself and colleagues. Feel free to reach out for any additional information.
tinyurl.com/36uyca7f
Reposted by Michael Love
I'm very pleased to announce the official publication of our lab's paper "DNA mutagenesis driven by transcription factor competition with mismatch repair" in today's issue of Cell! www.cell.com/cell/abstrac...
DNA mutagenesis driven by transcription factor competition with mismatch repair
Competition between transcription factors and mismatch repair machinery drives localized
hypermutation at regulatory elements, with implications for cancer and genome evolution.
www.cell.com
October 2, 2025 at 11:37 PM
I'm very pleased to announce the official publication of our lab's paper "DNA mutagenesis driven by transcription factor competition with mismatch repair" in today's issue of Cell! www.cell.com/cell/abstrac...
Reposted by Michael Love
My paper "Examining the Interface Design of Tidyverse" is now published in ANZJS. This paper calls attention to the importance of UI/UX principles & approaches to statisiticians and #rstats developers.
Many thanks to reviewers who made this paper better!
🔗 onlinelibrary.wiley.com/share/author...
Many thanks to reviewers who made this paper better!
🔗 onlinelibrary.wiley.com/share/author...
November 23, 2025 at 9:58 AM
My paper "Examining the Interface Design of Tidyverse" is now published in ANZJS. This paper calls attention to the importance of UI/UX principles & approaches to statisiticians and #rstats developers.
Many thanks to reviewers who made this paper better!
🔗 onlinelibrary.wiley.com/share/author...
Many thanks to reviewers who made this paper better!
🔗 onlinelibrary.wiley.com/share/author...
Reposted by Michael Love
I wrote a little bit about the "missing heritability" question and several recent studies that have brought it to a close. A short 🧵
The missing heritability question is now (mostly) answered
Not with a bang but with a whimper
theinfinitesimal.substack.com
November 21, 2025 at 10:34 PM
I wrote a little bit about the "missing heritability" question and several recent studies that have brought it to a close. A short 🧵
Reposted by Michael Love
what is your #1 most important rule about concise science writing?
November 20, 2025 at 1:00 AM
what is your #1 most important rule about concise science writing?
what is your #1 most important rule about concise science writing?
November 20, 2025 at 1:00 AM
what is your #1 most important rule about concise science writing?
Reposted by Michael Love
@hakha.bsky.social and I wrote a Research Briefing (with a lay summary + "behind the scenes") of our paper on how genes are prioritized by GWAS and rare variant burden tests. 🧬🧪
www.nature.com/articles/d41...
www.nature.com/articles/d41...
How do genetic association studies rank genes?
Genome-wide association studies and rare-variant burden tests reveal complementary aspects of trait biology.
www.nature.com
November 19, 2025 at 6:43 PM
@hakha.bsky.social and I wrote a Research Briefing (with a lay summary + "behind the scenes") of our paper on how genes are prioritized by GWAS and rare variant burden tests. 🧬🧪
www.nature.com/articles/d41...
www.nature.com/articles/d41...
Reposted by Michael Love
Super cool paper from Sheel Chandra + Ziyue Gao. kmer context matters a lot for mutability of both methylated and unmethylated CpGs.
But!! the effect of kmer context on unmethylated CpGs is basically independent of the effect of kmer context on methylated CpGs!
www.biorxiv.org/content/10.1...
But!! the effect of kmer context on unmethylated CpGs is basically independent of the effect of kmer context on methylated CpGs!
www.biorxiv.org/content/10.1...
Sequence context and methylation interact to shape germline mutation rate variation at CpG sites
A prominent example of sequence context-dependent mutation rate variation is the elevated transition rate at CpG sites, which is largely attributed to cytosine methylation. CpGs with different flankin...
www.biorxiv.org
November 18, 2025 at 8:13 PM
Super cool paper from Sheel Chandra + Ziyue Gao. kmer context matters a lot for mutability of both methylated and unmethylated CpGs.
But!! the effect of kmer context on unmethylated CpGs is basically independent of the effect of kmer context on methylated CpGs!
www.biorxiv.org/content/10.1...
But!! the effect of kmer context on unmethylated CpGs is basically independent of the effect of kmer context on methylated CpGs!
www.biorxiv.org/content/10.1...
Reposted by Michael Love
@wytamma.bsky.social : so, it took a little bit of extra time (not the flight back from the CZI meeting), but I decided to just f#&$ing do it, and the basic code to build and parse with the auxiliary fastq index is working (github.com/COMBINE-lab/...). 1/2
GitHub - COMBINE-lab/mim: A small, auxiliary index to massively improve parallel fastq parsing
A small, auxiliary index to massively improve parallel fastq parsing - COMBINE-lab/mim
github.com
November 19, 2025 at 3:01 AM
@wytamma.bsky.social : so, it took a little bit of extra time (not the flight back from the CZI meeting), but I decided to just f#&$ing do it, and the basic code to build and parse with the auxiliary fastq index is working (github.com/COMBINE-lab/...). 1/2
Reposted by Michael Love
I'm a longtime fan of Affinity Designer as an affordable Illustrator-killer for figures, and... it's now free?! www.canva.com/newsroom/new...
Highly recommended if you're sick of paying Adobe $. Maybe Canva can buy NPG too and get rid of the OA fees.
Highly recommended if you're sick of paying Adobe $. Maybe Canva can buy NPG too and get rid of the OA fees.
Why we made Affinity free, and how we’ll keep it that way
We’ve made Affinity completely free, empowering professional designers with studio-grade creative software, supported by Canva’s sustainable ecosystem.
www.canva.com
November 18, 2025 at 11:28 PM
I'm a longtime fan of Affinity Designer as an affordable Illustrator-killer for figures, and... it's now free?! www.canva.com/newsroom/new...
Highly recommended if you're sick of paying Adobe $. Maybe Canva can buy NPG too and get rid of the OA fees.
Highly recommended if you're sick of paying Adobe $. Maybe Canva can buy NPG too and get rid of the OA fees.