🔥The 9th Round of Easy Loan, Earn $40 Reward is in progress❗️ ⏰ Promotion Period: January 15th - Feburary 15th, 2025 👉 Register now and check more details at gate.io/campaigns/358

Very excited to be at my first in-person #ISSCR2023! I will be presenting my follow-up work of the Retinal Atlas, this time generating an Embryo Atlas to look at blastoids. Please come say hello, happy to talk about my retinal and embryo work! #embryos #blastoids #computational

Scholarships for graduate study in our lab, or any of the other fantastic CMRI groups (Noa Lamm Dr Tracy Bryan Computational Systems Biology Lab, Stem Cell Medicine Group and Organoid Facility, Gene Therapy, and more), are open. If you are interested in joining our team, please DM or e-mail Tony Cesare.

The much-anticipated August Special Issue is now online! The issue discusses #pluripotent stem cell-based therapies and their path to the clinic. Check out the editorial from guest editors Kazuo Takayama & Shinya Yamanaka. CiRA Gladstone Institutes ISSCR cell.com/stem-cell-repo…

Decoding gene regulatory networks cellmolbiocommunity.springernature.com/posts/decoding…

I'm extremely proud to see our work on ensemble deep learning applied to kinase-substrate prediction using phosphoproteomics data published doi.org/10.1093/nargab…. This wouldn't be possible without Sean Humphrey Benjamin Parker James Burchfield and outstanding PhD student Di Xiao.

Thrilled to announce our work Computational Systems Biology Lab chunlei liu Genome Biology! 🎉Our paper delves into the crucial role of feature selection in scRNA-seq data analysis, showcasing the effectiveness of various deep learning-based methods. Check it out! : genomebiology.biomedcentral.com/articles/10.11…

Our recent study (doi.org/10.1186/s13059…) highlighted the potential use of deep learning for selecting features in scRNA-seq data. Our new lab study (doi.org/10.1186/s13059…) by Hao Lawrence Huang, chunlei liu, and Manoj M Wagle examines their suitability and necessary improvements.

Last chance to register! Join us tomorrow to hear how scientists across varying disciplines are applying #AI and #machinelearning to their #stemcell research. #ISSCR members have access to this program for free 👉 bit.ly/3M3O7a7

Look for a "wet-lab" postdoc researcher to join our ComputationalSystemsBiology lab at Children's Medical Research Institute. Send your app if you work with stem cells Stem Cell Foundation Stem Cells Australia Australasian Society for Stem Cell Research and epigenetics Australasian Epigenetics Alliance. Ads: seek.com.au/job/72141110. Close date: 10 Jan

This position from our lab is closing on 12 Jan this Friday. This will be your chance to create your own wet research program and benefit from a computational lab with strong machine/deep learning expertise. It is a unique opportunity to become 'amphibian' multidisciplinary.

Numerous methods can select spatially variable genes (SVGs) from spatial transcriptomic data. We ask: do they select a similar set of SVGs? Are the reported statistics reliable? How accurate and reproducible of SVG selection? And how well they perform downstream. Check out:

The application of deep learning to single-cell omics is burgeoning. Yet, the lack of model interpretability remains a significant challenge. We review recent works in interpretable deep learning that mitigate this weakness in single-cell research: arxiv.org/abs/2401.06823

Thrilled to share our latest paper! Our collaboration with Paul Wade shows CHD4's role as a chromatin proof-reading enzyme that inhibits unnecessary chromatin opening. Congrats to lead author Mika Saotome, and huge thanks to Paul Wade & all authors academic.oup.com/nar/article/do…

From Carissa Chen on profiling brain organoids using trans-omics. With the Stem Cell Medicine Group and Organoid Facility and published in Cell Reports doi.org/10.1016/j.celr…. Look forward to a future where brain organoids model the human brain development and diseases ISSCR, Stem Cell Foundation, Australasian Society for Stem Cell Research

It was amazing working with Agus Salim (the brains behind the method!), Carissa Chen, Computational Systems Biology Lab, Melissa J Davis, Jean Yang. South Australian immunoGENomics Cancer Institute, Sydney Precision Data Science Centre, University of Melbourne, CMRI

1/5 Our review on Interpretable deep learning in single-cell omics is now out in Bioinformatics. Big thanks to all the co-authors and everyone who supported this work Computational Systems Biology Lab chunlei liu Carissa Chen University of Sydney CMRI Sydney Precision Data Science Centre Sydney Science Oxford Journals

It is my honour to serve on the early career editorial board of stem cell reports.

We're thrilled to share our collaborative work with Jothi Lab on the human embryo atlas for human blastoid assessment (biorxiv.org/content/10.110…). This much-needed work by Hani Jieun Kim provides insights into popular human blastoid models.

Thrilled to announce the release of "BrainSTEM: A multi-resolution fetal brain atlas to assess the fidelity of human midbrain cultures" tinyurl.com/scbrainstem ! 🧠🧬 Proud to be part of this incredible University of Sydney and Duke-NUS Medical School collaboration with Alfred Sun and John Ouyang ! 🙌

And finally, Computational Systems Biology Lab and colleagues also share their experimental plan to compare algorithms for single-cell multi-modal data integration. doi.org/10.6084/m9.fig…