Micha Sam Brickman Raredon
@msbr89Assistant Professor @YAnesthesiology | Tissue Systems Biology | Cell-Cell Signaling | Lung Regeneration | Neuroscience
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In 2017, we began studying rat lungs using single-cell. One group of cells jumped out to us. We called it 'Sox9+'. We now understand that these are alveolar tuft cells, and that they are doing something very interesting: A thread 🧵🧵👇👇: biorxiv.org/content/10.110…
8 million cells: virtual embryo shows organs forming in exquisite detail nature.com/articles/d4158… #journals #feedly
Here is the link to video of introduction course @cdf1530 on biological information. A historical perspective on representations of the genome, highlighting contributions of von Neumann, Jacob&Monod, Waddington, Alberch etc. Video (french)+pdf (english): tinyurl.com/y4k44cd4
Excited to share our study on spatio-temporal reconstruction of cardiac scar formation led by @ChanAndyson We combine scRNA-seq with spatial transcriptomics to resolve the fibrotic niche and the niche of dedifferentiating cardiomyocytes. biorxiv.org/content/10.110…
In case you are looking for an interesting/easy reading this weekend, how about some thoughts on in vitro human cell-based models cell.com/cell/abstract/… @CellPressNews @TheLutolfLab @TakebeLab
I wrote a little Blogpost about how to make figures interactive, using the python library bokeh: luerig.net/posts/interact… I use this quite often to better understand multivariate phenotypic data (e.g., in PCA), especially if it's abstract (e.g. image embeddings from AI models)
Published in Development. Checkout Go-Nuclear 3D nuclei segmentation pipeline using PlantSeg and StarDist.
biorxiv.org/content/10.110… "...our findings demonstrate that Decipher can decode signalling pathways and report on ligand-receptor mediated transcription factor – target gene networks that underlie processes in homeostasis and disease, as well as cellular responses to therapies"
The mantra that spatial transcriptomics is about location, location, location is catchy, but what does it really mean? We have just posted biorxiv.org/content/10.110…, work of Kayla Jackson et al., that describes the concordex method for identifying spatial homogeneous regions. 1/🧵
Our "Single Cell Analysis Reveals Novel Immune Perturbations in Fibrotic Hypersensitivity Pneumonitis" is finally out!! It provides the first comprehensive #ImmuneILDCellAtlas in FHP with comparisons to IPF & controls. The 🧵about the paper is below: atsjournals.org/doi/10.1164/rc…
I am very much enjoying Google AI.
What anaesthesia reveals about human brains and consciousness nature.com/articles/s4156…
Single cell RNA analysis uncovers the cell differentiation and functionalization for air breathing of frog lung nature.com/articles/s4200…
We thought there wasn't much new to learn about the cell cycle. Turns out we were wrong! Our paper (out today @Nature) identifies a novel alternative cell cycle that regulates differentiation, not cell division. tinyurl.com/4a6yeuke. 1/10
Happy to announce our preprint "EzReverse - a Web Application for Background Adjustment of Color Images" that reports a web app generated by @s_xinwei biorxiv.org/content/10.110…
In the latest issue! Establishing a conceptual framework for holistic cell states and state transitions dlvr.it/T7Vydk
New blog post: “Untangling the hairball using statistical inference” skewed.de/tiago/posts/ha… 1/4
Intestinal epithelium, derived from hepatocytes through an EMT-like process. Very cool work and looking forward to understanding the details: nature.com/articles/s4146…
RELEASE DAY After almost 10 years of hard work, tireless research, and a dive deep into the kernels of computer science, I finally realized a dream: running a high-level language on GPUs. And I'm giving it to the world! Bend compiles modern programming features, including: -…
1🔬/ Excited to share our latest preprint led by @ShuxiaoC , @Shenggao10 , @GarryPNolan , @SizunJ , @ZongmingMa , and with help from @shaleklab, Scott and more! biorxiv.org/content/10.110…
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Institute of Lung Health and Immunity
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Rory Morty
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Aleksandra Tata
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