Jimmy Lee
@drjimmylee.bsky.social
Senior Data Scientist - Bayraktar Group @sangerinstitute.bsky.social
Instagram: Sanger2Helmholtz
Instagram: Sanger2Helmholtz
📢 @bayraktarlab.bsky.social & colabs at @sangerinstitute.bsky.social are assembling the @opentargets.org funded Neuroimmune Team 🧠🧬-Leverage AI to uncover neurodegeneration
Tech Spec: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
Postdoc AI: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
Tech Spec: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
Postdoc AI: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
June 30, 2025 at 9:07 AM
📢 @bayraktarlab.bsky.social & colabs at @sangerinstitute.bsky.social are assembling the @opentargets.org funded Neuroimmune Team 🧠🧬-Leverage AI to uncover neurodegeneration
Tech Spec: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
Postdoc AI: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
Tech Spec: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
Postdoc AI: sanger.wd103.myworkdayjobs.com/en-US/Wellco...
Very excited to see this work comes out ad preprint! An elegant strategy discovering novel recessive signals in Exome sequencing dataset of the British South Asian population 🧬
#bioinformatics #exome #DNA #datascience #genomics #genetics
#bioinformatics #exome #DNA #datascience #genomics #genetics
Preprint alert! 🚨
doi.org/10.1101/2025...
Our manuscript on Exome sequencing and analysis of 44,028 British South Asians, using @genesandhealth.bsky.social is now available at @medrxivpreprint.bsky.social!
We present several great results, and I’m thrilled to highlight the pieces I worked on:
doi.org/10.1101/2025...
Our manuscript on Exome sequencing and analysis of 44,028 British South Asians, using @genesandhealth.bsky.social is now available at @medrxivpreprint.bsky.social!
We present several great results, and I’m thrilled to highlight the pieces I worked on:
Exome sequencing and analysis of 44,028 British South Asians enriched for high autozygosity
Genes and Health (G&H) is a biomedical study of adult British-Pakistani and -Bangladeshi research volunteers enriched for autozygosity. We performed whole exome sequencing in 44,028 G&H participants, ...
doi.org
June 12, 2025 at 5:37 PM
Very excited to see this work comes out ad preprint! An elegant strategy discovering novel recessive signals in Exome sequencing dataset of the British South Asian population 🧬
#bioinformatics #exome #DNA #datascience #genomics #genetics
#bioinformatics #exome #DNA #datascience #genomics #genetics
Reposted by Jimmy Lee
Analyzing your single-cell data by mapping to a reference atlas? Then how do you know the mapping actually worked, and you’re not analyzing mapping-induced artifacts? We developed mapQC, a mapping evaluation tool www.biorxiv.org/content/10.1... from the @fabiantheis lab. Let’s dive in🧵
June 3, 2025 at 8:24 AM
Analyzing your single-cell data by mapping to a reference atlas? Then how do you know the mapping actually worked, and you’re not analyzing mapping-induced artifacts? We developed mapQC, a mapping evaluation tool www.biorxiv.org/content/10.1... from the @fabiantheis lab. Let’s dive in🧵
Amazing work by the GBM-SPACE team atlassing one of the deadliest cancers #glioblastoma at multimodality, & coupled the elegant scDORI framework.
These studies reveal a high-resolution spatiotemporal cell trajectory from tumour heterogeneity & plasticity at both cellular and molecular levels
These studies reveal a high-resolution spatiotemporal cell trajectory from tumour heterogeneity & plasticity at both cellular and molecular levels
How does tumour heterogeneity arise? How can we predict cancer cell plasticity? In 2 new studies, we trace #glioblastoma heterogeneity to a spatial cancer cell trajectory w. multimodal cell atlassing bit.ly/4mkrWgs & predict plasticity w. snRNA/ATAC+deep learning bit.ly/3FbI6Ic 🧵
May 31, 2025 at 10:14 AM
Amazing work by the GBM-SPACE team atlassing one of the deadliest cancers #glioblastoma at multimodality, & coupled the elegant scDORI framework.
These studies reveal a high-resolution spatiotemporal cell trajectory from tumour heterogeneity & plasticity at both cellular and molecular levels
These studies reveal a high-resolution spatiotemporal cell trajectory from tumour heterogeneity & plasticity at both cellular and molecular levels
Ever wondered what a snapshot of single-cell/spatial dataset can reveal?
scCellFie - a scalable tool that goes beyond gene expression, making metabolic analysis possible
3-2-1, Say GENES 🤳
PREPRINT: doi.org/10.1101/2025...
DOWNLOAD: sccellfie.readthedocs.io
#DataScience #Bioinformatics #Spatial
scCellFie - a scalable tool that goes beyond gene expression, making metabolic analysis possible
3-2-1, Say GENES 🤳
PREPRINT: doi.org/10.1101/2025...
DOWNLOAD: sccellfie.readthedocs.io
#DataScience #Bioinformatics #Spatial
May 15, 2025 at 2:10 PM
Ever wondered what a snapshot of single-cell/spatial dataset can reveal?
scCellFie - a scalable tool that goes beyond gene expression, making metabolic analysis possible
3-2-1, Say GENES 🤳
PREPRINT: doi.org/10.1101/2025...
DOWNLOAD: sccellfie.readthedocs.io
#DataScience #Bioinformatics #Spatial
scCellFie - a scalable tool that goes beyond gene expression, making metabolic analysis possible
3-2-1, Say GENES 🤳
PREPRINT: doi.org/10.1101/2025...
DOWNLOAD: sccellfie.readthedocs.io
#DataScience #Bioinformatics #Spatial
Reposted by Jimmy Lee
We are delighted to announce a new collaboration between HCA and @UNESCO.org to help advance open science, global capacity and ethical frameworks to deliver the benefits of genomics at a global scale.
www.humancellatlas.org/news/the-hum...
www.humancellatlas.org/news/the-hum...
March 26, 2025 at 4:10 PM
We are delighted to announce a new collaboration between HCA and @UNESCO.org to help advance open science, global capacity and ethical frameworks to deliver the benefits of genomics at a global scale.
www.humancellatlas.org/news/the-hum...
www.humancellatlas.org/news/the-hum...
Absolutely over the moon to share our COVID-19 study is now featured on
@naturecomms.bsky.social
Editors’ Highlights for Microbiology & Infectious Diseases! Huge thanks to
Sonja Schmid for choosing our work as one of the 50 BEST papers in this field. 💡Check it out: www.nature.com/collections/...
@naturecomms.bsky.social
Editors’ Highlights for Microbiology & Infectious Diseases! Huge thanks to
Sonja Schmid for choosing our work as one of the 50 BEST papers in this field. 💡Check it out: www.nature.com/collections/...
March 19, 2025 at 1:56 PM
Absolutely over the moon to share our COVID-19 study is now featured on
@naturecomms.bsky.social
Editors’ Highlights for Microbiology & Infectious Diseases! Huge thanks to
Sonja Schmid for choosing our work as one of the 50 BEST papers in this field. 💡Check it out: www.nature.com/collections/...
@naturecomms.bsky.social
Editors’ Highlights for Microbiology & Infectious Diseases! Huge thanks to
Sonja Schmid for choosing our work as one of the 50 BEST papers in this field. 💡Check it out: www.nature.com/collections/...
Reposted by Jimmy Lee
If you have experience in sc/spatial transcriptomics with an interest in microbes....come and join our team as a computational postdoc:
sanger.wd103.myworkdayjobs.com/WellcomeSang...
Incredibly exciting datasets on host-microbe interactions in the lung.
Pls RT and reach out if you are interested.
sanger.wd103.myworkdayjobs.com/WellcomeSang...
Incredibly exciting datasets on host-microbe interactions in the lung.
Pls RT and reach out if you are interested.
Postdoctoral Fellow - Computational
Do you want to help us improve human health and understand life on Earth? Make your mark by shaping the future to enable or deliver life-changing science to solve some of humanity’s greatest challenge...
sanger.wd103.myworkdayjobs.com
March 12, 2025 at 4:53 PM
If you have experience in sc/spatial transcriptomics with an interest in microbes....come and join our team as a computational postdoc:
sanger.wd103.myworkdayjobs.com/WellcomeSang...
Incredibly exciting datasets on host-microbe interactions in the lung.
Pls RT and reach out if you are interested.
sanger.wd103.myworkdayjobs.com/WellcomeSang...
Incredibly exciting datasets on host-microbe interactions in the lung.
Pls RT and reach out if you are interested.
Thrilled to share our new @naturecomms.bsky.social study with @sam-n-barnett.bsky.social on early vs late #COVID19 lung damage 🫁.
Using single-cell & histopathology-informed #SpatialTranscriptomics, we uncovered key biomarkers & immune patterns. Thanks to collaborators, UKCIC & @humancellatlas.org
Using single-cell & histopathology-informed #SpatialTranscriptomics, we uncovered key biomarkers & immune patterns. Thanks to collaborators, UKCIC & @humancellatlas.org
How lung damage worsens during COVID-19 has been mapped at a cellular level. 🦠
By understanding how our lungs respond to the virus over time, this new knowledge may help identify future therapies for COVID-19.
www.sanger.ac.uk/news_item/ce...
By understanding how our lungs respond to the virus over time, this new knowledge may help identify future therapies for COVID-19.
www.sanger.ac.uk/news_item/ce...
Cellular changes as lung damage worsens in COVID-19 revealed
Researchers uncover cellular changes as damage to alveoli in the lungs progresses during COVID-19.
www.sanger.ac.uk
March 12, 2025 at 6:35 AM
Thrilled to share our new @naturecomms.bsky.social study with @sam-n-barnett.bsky.social on early vs late #COVID19 lung damage 🫁.
Using single-cell & histopathology-informed #SpatialTranscriptomics, we uncovered key biomarkers & immune patterns. Thanks to collaborators, UKCIC & @humancellatlas.org
Using single-cell & histopathology-informed #SpatialTranscriptomics, we uncovered key biomarkers & immune patterns. Thanks to collaborators, UKCIC & @humancellatlas.org
Absolutely Amazing!!
Thrilled to share LUNA🌕 – our new generative AI model that reassembles tissue structures from dissociated cells! LUNA learns spatial priors over existing spatially resolved datasets with the aim to predict cell locations de novo.
Check out our paper here: www.biorxiv.org/content/10.1...
Check out our paper here: www.biorxiv.org/content/10.1...
February 24, 2025 at 6:33 PM
Absolutely Amazing!!
It was a pleasure to give a talk at the #HCA2024Asia @humancellatlas.org meeting. I really enjoyed catching up with some @sangerinstitute.bsky.social alumni and had some fascinating discussions with amazing scientists!!
#HumanCellAtlas #Neuroscience #SingleCell #Bioinformatics
#HumanCellAtlas #Neuroscience #SingleCell #Bioinformatics
December 5, 2024 at 10:09 AM
It was a pleasure to give a talk at the #HCA2024Asia @humancellatlas.org meeting. I really enjoyed catching up with some @sangerinstitute.bsky.social alumni and had some fascinating discussions with amazing scientists!!
#HumanCellAtlas #Neuroscience #SingleCell #Bioinformatics
#HumanCellAtlas #Neuroscience #SingleCell #Bioinformatics
Reposted by Jimmy Lee
The integrated transcriptomic cell atlas of human neural #organoids, Barbara Treutlein's lab, @fabiantheis.bsky.social @graycamplab.bsky.social @sergiuppasca.bsky.social @giorgiaquadrato.bsky.social and colleagues:
www.nature.com/articles/s41...
www.nature.com/articles/s41...
An integrated transcriptomic cell atlas of human neural organoids - Nature
A human neural organoid cell atlas integrating 36 single-cell transcriptomic datasets shows cell types and states and estimates transcriptomic similarity between primary and organoid counterparts, sho...
www.nature.com
November 21, 2024 at 6:39 AM
The integrated transcriptomic cell atlas of human neural #organoids, Barbara Treutlein's lab, @fabiantheis.bsky.social @graycamplab.bsky.social @sergiuppasca.bsky.social @giorgiaquadrato.bsky.social and colleagues:
www.nature.com/articles/s41...
www.nature.com/articles/s41...