Jimmy Lee

391 posts

Jimmy Lee banner
Jimmy Lee

Jimmy Lee

@THJimmyLee

Senior Data Scientist - Bayraktar Group at @sangerinstitute

Cambridge, England Katılım Eylül 2011
623 Takip Edilen332 Takipçiler
Sabitlenmiş Tweet
Jimmy Lee
Jimmy Lee@THJimmyLee·
Absolutely over the moon to share our COVID-19 study is now featured on @NatureComms Editors’ Highlights for Microbiology & Infectious Diseases! Huge thanks to @Lake_Octopus for choosing our work as one of the 50 BEST papers in this field. 💡Check it out: nature.com/collections/je…
Omer Ali Bayraktar@bayraktar_lab

our work mapping the molecular + cellular progression of lung damage in severe COVID-19 is out @NatureComms ! A covid side project that turned into a labour of love over the years & really happy @THJimmyLee & Sam pushed this collaboration over the line. nature.com/articles/s4146…

English
0
1
6
818
Jimmy Lee retweetledi
Mo Lotfollahi
Mo Lotfollahi@mo_lotfollahi·
🚨 We’re hiring @sangerinstitute! Join us as a Postdoc or ML Scientist to build generative & foundation models for biology. 🧬 Spatial + single-cell omics 🧠 Diffusion, transformers, multimodal data 💊 Drug discovery via Open Targets Apply: Postdocs in computational biology and AI for biology 👉 lnkd.in/dk6PAp8y ML scientist (sequence modelling) 👉 lnkd.in/dKEYJSNj ML scientist (Foundation model) 👉 lnkd.in/dsp-CtcV 🔁 RT to help us find amazing people! #AI #ML #genomics #bioinformatics #postdoc #foundationmodels #computationalbiology #hiring
English
4
44
127
25.3K
Jimmy Lee retweetledi
Anna Arutyunyan
Anna Arutyunyan@immunobananna·
Alzheimer’s disease 🧠starts with a molecular domino effect - but what triggers the first piece to fall? In our new study we cracked open the black box of early protein aggregation, and the findings could reshape how we fight neurodegeneration. 🧵👇 science.org/doi/10.1126/sc…
English
2
12
29
2.7K
Jimmy Lee
Jimmy Lee@THJimmyLee·
Very cool study that discovers novel recessive signals in a Exome sequencing of British South Asians population! 🧬 #Bioinformatics #exome #exomesequencing #populationgenetics #Genetics #datascience
Georgios (Yiorgos) Kalantzis@YiorKalantz

Preprint alert! 🚨 Our manuscript on Exome sequencing and analysis of 44,028 British South Asians (Genes & Health) is now live @medrxivpreprint! Among great findings, and I’m thrilled to highlight the pieces I worked on 🧵 doi.org/10.1101/2025.0…

English
0
0
2
106
Jimmy Lee
Jimmy Lee@THJimmyLee·
Amazing work by the GBM-SPACE team atlassing one of the deadliest cancers #glioblastoma at multimodality, & coupled the elegant scDORI framework. Revealing a high-res spatiotemporal cell trajectory from tumour heterogeneity & plasticity at both cellular and molecular levels #GBM
Omer Ali Bayraktar@bayraktar_lab

How does tumour heterogeneity arise? How can we predict cancer cell plasticity? In 2 studies, we trace #glioblastoma heterogeneity to a spatial cancer cell trajectory w. atlassing bit.ly/4mkrWgs & predict plasticity w. snRNA/ATAC+deep learning bit.ly/3FbI6Ic 🧵

English
0
0
2
146
Jimmy Lee
Jimmy Lee@THJimmyLee·
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🤳 BioRxiv doi.org/10.1101/2025.0… TRY NOW sccellfie.readthedocs.io #DataScience #Bioinformatics
Erick Armingol@eagut

I’m happy to share that our scCellFie manuscript is finally on bioRxiv — a project that was an amazing opportunity to return to my roots in metabolism! We infer metabolic activity from single-cell & spatial transcriptomics 🧬 Read the pre-print here👇 📄 doi.org/10.1101/2025.0…

English
0
7
13
1.2K
Jimmy Lee retweetledi
Hana Aliee
Hana Aliee@hana_aliee·
How can causal machine learning help answer causal questions in single-cell genomics—like how genes interact and influence phenotypes? Our latest @NatureGenet paper explores this challenge, along with approaches to generalizability, interpretability, and modeling cell dynamics.
Hana Aliee tweet media
English
1
11
18
1.9K
Jimmy Lee retweetledi
Mo Lotfollahi
Mo Lotfollahi@mo_lotfollahi·
Amazing news for @humancellatlas
Holger Heyn@hoheyn

⭐ Huge NEWS for the Human Cell Atlas! ⭐ The Human Cell Atlas signs a partnership with the UNESCO. @humancellatlas @UNESCO Tremendous recognition of the Human Cell Atlas (HCA) project's vision, ethical standards, and global impact. UNESCO, renowned worldwide for promoting open science, educational development, and ethical frameworks, now formally acknowledges the HCA’s efforts and mission. This collaboration honors HCA’s commitment to building a truly representative atlases of the global human population, underscoring our dedication to inclusivity, openness, and equity in scientific research. As we move forward into the next exciting phase, developing also disease-specific atlases, this partnership with the UNESCO will empower us to tackle significant global health challenges, including diseases endemic to regions and worldwide pandemics. Today, I'm feeling even prouder to be part of the HCA! 🧡 Looking forward to contributing further to building this remarkable effort in an inclusive, equitable, and truly global manner. humancellatlas.org/news/the-human…

English
0
2
10
2.5K
Jimmy Lee
Jimmy Lee@THJimmyLee·
Thrilled to share our new @NatureComms study w/ Sam from @NosedaLab on early vs late #COVID19 lung damage 🫁. Using single-cell & histopathology-informed #SpatialTranscriptomics, we uncovered key biomarkers & immune patterns. Thanks to collaborators & @UKCICstudy @humancellatlas
Omer Ali Bayraktar@bayraktar_lab

our work mapping the molecular + cellular progression of lung damage in severe COVID-19 is out @NatureComms ! A covid side project that turned into a labour of love over the years & really happy @THJimmyLee & Sam pushed this collaboration over the line. nature.com/articles/s4146…

English
1
3
5
378
Jimmy Lee retweetledi
Fabian Theis
Fabian Theis@fabian_theis·
Interested in exploring @vevo_ai’s massive Tahoe-100M single-cell perturbation dataset? #Scanpy now supports out-of-core analysis, powered by Dask—allowing you to seamlessly work with a single huge AnnData object without loading everything into memory. 🔗 theislab.github.io/vevo_Tahoe_100…
GIF
English
6
78
446
34.6K
Jimmy Lee
Jimmy Lee@THJimmyLee·
Very excited to see this work out at @naturemethods Our lab's RNA velocity toolkit cell2fate ✅all the boxes if you're 1⃣looking for complex & weak dynamical signals 2⃣driver gene programmes 3⃣Cell fates in Spatial Transcriptomics! See the "X"torial shared below: #bioinformatics
Omer Ali Bayraktar@bayraktar_lab

happy to see our cell2fate model out at @naturemethods. It is a completely new take on RNA velocity to disentangle complex cell trajectories from scRNA data & we have some very cool applications coming up! nature.com/articles/s4159…

English
0
1
5
233
Jimmy Lee
Jimmy Lee@THJimmyLee·
Absolutely amazing!
Maria Brbic@mariabrbic

Thrilled to share LUNA🌕 – our new generative AI model that reassembles tissues from dissociated cells! Think of it as AlphaFold for cells 🧬 From the MERFISH mouse brain atlas to the scRNA-seq atlas & Slide-tags datasets, LUNA is widely applicable. Bringing us closer to virtual tissue modeling 🧠 Super proud of @yistyu – what a way to start her PhD!🙌 And huge thanks also to all our collaborators @thecekbote @stephanedascoli @pafrossard Nikita Morozov Jiashuo Fan Curious about LUNA? Check out our paper Tissue Reassembly with Generative AI: biorxiv.org/content/10.110…

English
0
0
2
167
Jimmy Lee retweetledi
Stephen Doyle
Stephen Doyle@stephenrdoyle·
Really fun to write this paper on spatial transcriptomics with @SarahBuddenborg . It’s an exciting technique that has a lot of potential in Parasitology for new insights.
Trends in Parasitology@TrendsParasitol

In our Jan issue: Entering the #spatial age of parasite #genomics, authored by @SarahBuddenborg & @stephenrdoyle highlighting Simone Haeberlein & colleagues’ @NatureComms article. #Transcriptomics #Helminths #Fasciola #hepatica @sangerinstitute @jlugiessen cell.com/trends/parasit…

English
0
9
35
1.4K
Jimmy Lee retweetledi
biohub
biohub@biohub·
Today we’re sharing an initial set of cell models that bring together #SingleCell & imaging data in a centralized place. They come with a suite of resources so they’re easy to run + further develop to quickly uncover the mechanics of how cells work czi.co/4g1jTSa
English
2
21
83
7.4K

Keşfet

@bayraktar_lab @mo_lotfollahi @sangerinstitute @OpenTargets @NatureGenet @humancellatlas @NatureComms @NosedaLab