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In academia you sometimes have to work 7 days a week, but the freedom to choose which 7 days is unparalleled

Out at Nature Methods just now! nature.com/articles/s4159… We present #SN2N, a flagship level unsupervised denoising solution. It’s fully competitive with supervised learning without needing large training-set and clean ground-truth, using 1 noisy frame for training. (1/n)

Let me introduce: InstanSeg 🦠🔬💻👩‍🔬 This *would* have been a short thread about Thibaut Goldsborough’s PhD work… but he solved too many problems. Now it's a long thread about 2 preprints, a whole new approach to cell segmentation & #opensource software to make it easy to use

＼無料ウェビナー開催📣／ ニューサウスウェールズ大学のJohn Lock先生(John Lock ) にご講演いただきます！顕微鏡を活用した精密医療（Precision Medicine）の最新情報をお届けします ＊本ウェビナーは英語講演です 日時：10/15 14時~ 参加方法：Zoom ▽お申込みはこちら events.zoom.us/ev/AilVvwFmO8m…

I'm excited to share the next version of patchwork with the world, available on CRAN now. First class support for gt tables and even more freedom with `free()` tidyverse.org/blog/2024/09/p…

REVIEW Nature Immunology Belinda Parker The complexity of immune evasion mechanisms throughout the metastatic cascade nature.com/articles/s4159…

This important review from the Belinda Parker has been published in Nature Rev Immunol highlighting multiple mechanisms cancers use to evade immune detection during metastatic spread & considerations to target aggressive cancers Nicole @thomasbchadwick go.nature.com/4gq0URQ

Thrilled to share our „PRedictor Of PHEnoTypes“ model Prophet! Led by Alejandro Tejada Lapuerta & Yuge Ji, Prophet is a transformer-based model that predicts outcomes for unseen experiments. It aims to understands biology by learning across assays and phenotypes over 4.7M+ experiments.

By leveraging transfer learning across various phenotypes, Prophet allows in silico prediction of unseen perturbations in unseen biological contexts to predict which experiments are more likely to succeed - reducing the number to perform by up to 60x in the IC_50 example below.

Its flexible encoding allows Prophet to predict genetic perturbations, small molecules & treatment combinations within one model. It scales w data, improving as it learns. Interestingly, learning across phenotypes boosts results, like using IC50 or RNA data to infer morphology.

Interested in applying Prophet for your own functional assay? Check out the manuscript biorxiv.org/content/10.110… or grab the model itself: github.com/theislab/proph… Really excited about this new predictive approach for phenotype & drug discovery, check it out!

Excited to share Cancer Systems Microscopy lab UNSW Medicine & Health multiplexed imaging (60+ markers/cell) for #EMT research & #CTC phenotyping from #liquidbiopsy, + extensible immunofluorescence (ExIF) for ♾️ computational multiplexing via routine 4-plex IF. tinyurl.com/36x7eu6w

Our #AI #research Nature Communications will help you use concepts from #multiomics data integration to fuse 4-channel imaging data into unlimitedly multiplexed image datasets to interrogate complex cell biology, like #EMT. rdcu.be/emtBc UNSW UNSW Medicine & Health Fatemeh Vafaee

New collab with & led by Kristopher Kilian showing brief capillary constriction drives cancer stem cell traits & tumorgenicity based on PIEZO mechanosensitivity. CTCs get an 'aggressiveness boost' from squeezing through small blood vessels. UNSW UNSW Medicine & Health biorxiv.org/content/10.110…

Not just noise! Single-cell quantitative imaging reveals that cell state in the epithelial-mesenchymal #EMT spectrum pre-determines different magnitudes, kinetics & localisation of EGF-induced phospho-signalling. Felix Kohane Christine Chaffer Fatemeh Vafaee biorxiv.org/content/10.110…

Our #Extensible_Immunofluorescence (ExIF) technique is a bit like #AI doing #origami. From some starting information (raw images = sheets of paper), AI can re-fold many alternatives (virtual images = alternate origami), capturing more #single-cell biology. nature.com/articles/s4146…

Have $10M and want to cure some diseases? It costs ~$1B to invent a new medicine…but $10M buys you Project Encore, to see if ANY existing drug might be repurposed for ~100 diseases that have no treatments. Contact me - be a hero for desperate patients! docs.google.com/document/d/1dM…