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2/ We developed an agent-based model in #netlogo of cancer cells and macrophages in which cells can move randomly or by chemotaxis, exchange signals, eat, and die.

Our newest & very comprehensive #NRMCBReview discusses both established and cutting-edge multi-omics technologies, and the optimization of throughput and resolution, modality integration, and accuracy. Alev Baysoy, Zhiliang, Rong Fan & Rahul Satija 👉🏼go.nature.com/3OW0ast

Today our Human Lung Cell Atlas (HLCA) paper came out in Nature Medicine nature.com/articles/s4159…! The HLCA includes 2.4M cells from 486 individuals and 49 datasets. Check out this tweetorial to learn more about how we built it, and how you can use it (1/21)

We then integrated the 14 healthy datasets, and saw that some methods were too harsh, making rare cell types undetectable. Others did not remove batch effects well. We used scIB nature.com/articles/s4159… to score the integration quality of 12 methods; scANVI did best (4/21)

1/ Do you want to get the promoter sequence of your favourite gene from Ensembl? The answer might be more complicated than you first thought, but we’re here to walk you through it. A thread...🧵 #genomics #bioinformatics #epigenomics #epigenetics #tweetorial #Ensembltraining🧬

A reminder 👇, see you on Mastodon. #TwitterDown

So proud of Yiyi presenting her first poster at the Glasgow Computational Biology conference about pooling methods improving DE analysis in single cell! #cbc23 #computationalbiology #singlecell #bioinformatics

#EveryCellisAnImmuneCell! A new study Immunity shows that #fibroblasts maintain hypodermal #macrophages that in turn autonomously control hyaluronic acid clearance! Disruption of this circuit protects against Staph aureus, opening to new therapies! doi.org/10.1016/j.immu…

Russell Group, which is made up of 24 leading #universities including Oxford and Cambridge, has announced that students will be allowed to use generative AI. Here's what you need to know 🧵👇 1/ #AIEthics

Thrilled to be awarded the BSI #Career Enhancing Grant !!! Thank you British Society for Immunology for this opportunity, and Prof Mariola Kurowska-Stolarska lab for your support. #PIEZO1 #macrophage #Rheumatoid #Arthritis UofG Sii

Burn it to the ground.

Systematic benchmarking of single-cell ATAC-sequencing protocols go.nature.com/3KqmUxG

Well time to retire Zoom, who is basically wants to use/abuse you to train their AI stackdiary.com/zoom-terms-now…

scientist after sequencing lots of single cells

Common statistical tests are linear models (or: how to teach stats) lindeloev.github.io/tests-as-linea…

Unfortunately, in the #scrna seq world, many things are kept "secret" that shouldn't be. Did you know that in addition to free open-source tools like STARsolo, alevin-fry, & many others, there exists a widely-used, closed-source tool, CellRanger, for preprocessing such data? 1/2

Thx #VYT2023 for the opportunity to learn how to communicate complex topics in an accessible way #psoriaticarthritis at University of Glasgow guided by great team Stefano Alivernini Prof Mariola Kurowska-Stolarska lab Dom Somma Aziza Elmesmari Dr Lucy MacDonald Ted Simakou Jack Frew Dario Bruno ElisaGremese Raphael Micheroli @Alex

Diving in the multimodal analysis of Rheumatoid Arthritis from pre-clinical to remission state. Stefano Alivernini at #SIR2023

Very happy to have received a Tenovus Scotland Tenovus Scotland grant! Looking forward to working on it!!! #RheumatoidArthritis

Sci Hub is a "pirate" website with 88M research papers freely available. Using it is not advisable. We should all try to make billion-dollar acdemic publishers richer. Here's a thread on integrating Zotero with Sci Hub to get free articles. PLEASE DON'T DO THIS 😉