Lukas Weber
@lmweber.bsky.social
Assistant Professor of Biostatistics, Boston University. Statistical genomics, genomic data science, open science, R programming https://lmweber.org/
Reposted by Lukas Weber
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
July 24, 2025 at 1:53 AM
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
Winter in Western Australia ☀️
June 29, 2025 at 12:39 PM
Winter in Western Australia ☀️
Reposted by Lukas Weber
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
www.biorxiv.org/content/10.1...
@pascual-reguant.bsky.social
@brukerspatial.bsky.social
@hoheyn.bsky.social
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...
www.biorxiv.org
June 27, 2025 at 6:33 PM
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
www.biorxiv.org/content/10.1...
@pascual-reguant.bsky.social
@brukerspatial.bsky.social
@hoheyn.bsky.social
Reposted by Lukas Weber
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
We discuss the broad range of exploratory spatial statistics options for spatial Omics technologies and show relevant use cases.
arxiv.org/abs/2412.01561
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...
arxiv.org
June 27, 2025 at 1:28 PM
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
We discuss the broad range of exploratory spatial statistics options for spatial Omics technologies and show relevant use cases.
arxiv.org/abs/2412.01561
Reposted by Lukas Weber
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
June 25, 2025 at 2:29 PM
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
Reposted by Lukas Weber
Very excited to see this important work out led by the talented @mictott.bsky.social @boyiguo.bsky.social @jhubiostat.bsky.social! 🧪🧬🖥️
🚨 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/
🧵👇
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/
🧵👇
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...
nature.com
June 6, 2025 at 5:34 PM
Very excited to see this important work out led by the talented @mictott.bsky.social @boyiguo.bsky.social @jhubiostat.bsky.social! 🧪🧬🖥️
Reposted by Lukas Weber
🚨 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/
🧵👇
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/
🧵👇
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...
nature.com
June 6, 2025 at 12:03 PM
🚨 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/
🧵👇
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/
🧵👇
Reposted by Lukas Weber
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... 🤩
https://pmc.ncbi.nlm.nih.gov/articles/PMC12166475/🤩
June 17, 2025 at 12:17 AM
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... 🤩
Feels like a social media tipping point might have happened 🐦🔵
November 13, 2024 at 9:36 PM
Feels like a social media tipping point might have happened 🐦🔵
Reposted by Lukas Weber
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...
Feeling very appreciative to all the amazing developers in the #Bioconductor and open science #rstats communities! #Genomics 🖥️ 🧬 #stats 👩🔬
🔗 stephaniehicks.com/singlecellde...
September 19, 2023 at 11:12 AM
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...
Feeling very appreciative to all the amazing developers in the #Bioconductor and open science #rstats communities! #Genomics 🖥️ 🧬 #stats 👩🔬
🔗 stephaniehicks.com/singlecellde...
One last visit to Washington DC before I leave for Boston 🇺🇸
September 4, 2023 at 11:03 PM
One last visit to Washington DC before I leave for Boston 🇺🇸
