Sign in

Lukas Weber

@lmweber.bsky.social
1.4K followers 139 following 11 posts

Assistant Professor of Biostatistics, Boston University. Statistical genomics, genomic data science, open science, R programming lmweber.org

PostsRepliesMedia
Reposted by Lukas Weber
Keri Martinowich @martinowk.bsky.social · 01/12/2025
Pretty neat to see our paper - led by @kr-maynard.bsky.social @lcolladotor.bsky.social on the 2021 list of most cited neuroscience papers 🧠🔬🧪 www.thetransmitter.org/publishing/w...
thetransmitter.org
The most-cited neuroscience papers from the past 30 years
Highly cited papers reflect the surge in artificial-intelligence research in the field and other technical advances.
1347
Lukas Weber @lmweber.bsky.social · 22/11/2025
We are excited to share our online book and preprint on “Orchestrating Spatial Transcriptomics Analysis with Bioconductor”!
11912
Reposted by Lukas Weber
Stephanie Hicks @stephaniehicks.bsky.social · 21/11/2025
I am very excited to share this book! It has been so much to collaborate on the project. We hope you find it useful!
0227
Reposted by Lukas Weber
bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 21/11/2025
Orchestrating Spatial Transcriptomics Analysis with Bioconductor www.biorxiv.org/content/10.1101/202…
01310
Reposted by Lukas Weber
Stephen Turner @stephenturner.us · 21/11/2025
Orchestrating Spatial Transcriptomics Analysis with Bioconductor (including interoperability with Python) Paper: www.biorxiv.org/content/10.1... Book: bioconductor.org/books/OSTA/ #Rstats
0218
Reposted by Lukas Weber
Michael Totty @mictott.bsky.social · 21/11/2025
Whether you're new to bioinformatics or a seasoned pro, OSTA covers everything that you need to know about spatial transcriptomics data analysis spanning both sequencing and imaging-based technologies within the Bioconductor framework 👨‍💻🧬 Congrats to all the authors on this huge effort!
052
Reposted by Lukas Weber
Keri Martinowich @martinowk.bsky.social · 21/11/2025
Honored to have gotten to be a part of this! I vividly remember the very early days of spatial transcriptomics when we were all scratching our heads over what to do with all this new data! It's come a long way - congrats @helucro.bsky.social @lmweber.bsky.social and everyone who contributed to this!
0133
Reposted by Lukas Weber
Helena Lucia Crowell @helucro.bsky.social · 21/11/2025
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!
bioconductor.org
Orchestrating Spatial Transcriptomics Analysis with Bioconductor
14024
Reposted by Lukas Weber
Kinnary Shah @kinnaryshah.bsky.social · 24/07/2025
so excited to share that our preprint characterizing the dorsal anterior cingulate cortex in post-mortem human brain from @lieberinstitute.bsky.social is out! we integrated matched SRT and snRNA-seq data to investigate agranularity and von Economo neurons
1143
Lukas Weber @lmweber.bsky.social · 29/06/2025
Winter in Western Australia ☀️
040
Reposted by Lukas Weber
Helena Lucia Crowell @helucro.bsky.social · 27/06/2025
Going from methods dev to full on cancer bio has been tough. All the more excited to see this out at last— www.biorxiv.org/content/10.1... @pascual-reguant.bsky.social @brukerspatial.bsky.social @hoheyn.bsky.social
biorxiv.org
Tracing colorectal malignancy transformation from cell to tissue scale
The transformation of normal intestinal epithelium into colorectal cancer (CRC) involves coordinated changes across molecular, cellular, and architectural scales; yet, how these layers integrate remai...
1125
Reposted by Lukas Weber
Martin Emons @martinemons.bsky.social · 27/06/2025
Update: We greatly revised our paper and renamed it “Harnessing the Potential of Spatial Statistics for Spatial Omics Data with pasta”. We discuss the broad range of exploratory spatial statistics options for spatial Omics technologies and show relevant use cases. arxiv.org/abs/2412.01561
arxiv.org
Harnessing the Potential of Spatial Statistics for Spatial Omics Data with pasta
Spatial omics assays allow for the molecular characterisation of cells in their spatial context. Notably, the two main technological streams, imaging-based and high-throughput sequencing-based, can gi...
1127
Reposted by Lukas Weber
Žiga Avsec @avsecz.bsky.social · 25/06/2025
Excited to launch our AlphaGenome API goo.gle/3ZPUeFX along with the preprint goo.gle/45AkUyc describing and evaluating our latest DNA sequence model powering the API. Looking forward to seeing how scientists use it! @googledeepmind
521982
Reposted by Lukas Weber
Stephanie Hicks @stephaniehicks.bsky.social · 06/06/2025
Very excited to see this important work out led by the talented @mictott.bsky.social @boyiguo.bsky.social @jhubiostat.bsky.social! 🧪🧬🖥️
1225
Reposted by Lukas Weber
Michael Totty @mictott.bsky.social · 06/06/2025
🚨 New paper published in @natmethods.nature.com! We introduce SpotSweeper, the first spatially-aware QC methods for spatial transcriptomics. 📰 Paper : nature.com/articles/s41... 💻 Code: github.com/MicTott/Spot... 📈 Website: mictott.github.io/SpotSweeper/ 🧵👇
nature.com
SpotSweeper: spatially aware quality control for spatial transcriptomics - Nature Methods
SpotSweeper is a spatially aware method for quality control of spatially resolved transcriptomics data that corrects for spatial confounding missed by existing methods, including both local and region...
13113
Reposted by Lukas Weber
Kinnary Shah @kinnaryshah.bsky.social · 17/06/2025
my work with @stephaniehicks.bsky.social and @boyiguo.bsky.social has been published in Biostatistics! tldr: the mean-variance bias exists in SRT data & impacts SVG detection. we propose #spoon, available on @bioconductor.bsky.social, to address this! pmc.ncbi.nlm.nih.gov/articles/PMC... 🤩
pmc.ncbi.nlm.nih.gov
273
Lukas Weber @lmweber.bsky.social · 13/11/2024
Feels like a social media tipping point might have happened 🐦🔵
180
Reposted by Lukas Weber
Stephanie Hicks @stephaniehicks.bsky.social · 19/09/2023
This morning I'm teaching an intro to single cell data science! Feeling very appreciative to all the amazing developers in the #Bioconductor and open science #rstats communities! #Genomics 🖥️ 🧬 #stats 👩‍🔬 🔗 stephaniehicks.com/singlecellde...
2439
Lukas Weber @lmweber.bsky.social · 05/09/2023
One last visit to Washington DC before I leave for Boston 🇺🇸
020
Lukas Weber @lmweber.bsky.social · 01/09/2023
Hello world 🙂🌤️
2100