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Cahan Lab | at JHMI @cahanLab

Computational & Experimental Stem Cell Biology. A member of the Department of Biomedical Engineering at Johns Hopkins University.

Joined August 2016
  • Tweets 87
  • Following 161
  • Followers 355
18 Photos and videos
Cahan Lab | at JHMI retweeted
Eric Kernfeld@ekernf01
22 Nov 2025
The second major chunk of my Ph.D. is now online in Genome Biology! Brief recap: 🧵 genomebiology.biomedcentral.…

A comparison of computational methods for expression forecasting

Genome Biology - Diverse machine learning methods promise to forecast gene expression changes in response to novel genetic perturbations. However, these methods’ accuracy is not well...

link.springer.com
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Individual variation in the emergence of anterior-to-posterior neural fates from human pluripotent stem cells: Stem Cell Reports cell.com/stem-cell-reports/f…

Individual variation in the emergence of anterior-to-posterior neural fates from human pluripotent...

Variation in the lineage bias of pluripotent cells from different humans can be mapped onto the primary axes of in vivo mammalian development. This variation in cell potential is driven by stable,...

cell.com
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PACNet quickly measures transcriptional fidelity of engineered cells from bulk data. Robust to exp method, it also compares yours to previously published data. Led by Emily Lo, with Dan Peng @Jvquez12 @MoEbrahimkhani @ChulanKwonLab. See @stemcellreports dlvr.it/SsTwDJ
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Cahan Lab | at JHMI retweeted
Reza Kalhor@kalhorlab
6 Apr 2023
We are looking for new postdocs to join our team. Positions are fully funded and you can pursue your interest in technology development, biological questions, or understanding disease. jobrxiv.org/job/johns-hopkin…
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Congratulations to Dr. Emily Su on the defense of her thesis Computational Tools to Explore Cell Identity Transitions with Application to Cell Fate Engineering! Please remember us when you become famous!
Emily Su's PhD thesis defense Computational Tools to Explore Cell Identity Transitions with Application to Cell Fate Engineering

ALT Emily Su's PhD thesis defense Computational Tools to Explore Cell Identity Transitions with Application to Cell Fate Engineering

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Replying to @stemcellreports
@stemcellreports special issue on Computational Systems Biology guest edited by @cahanlab and @TreutleinLab includes editorial conversation with ChatGPT on the state of the field tinyurl.com/2tfhm35d. Thank you to all of the contributors: 1/n
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by A Thakor tinyurl.com/56ed6wv8, @NSC_BrainDamage tinyurl.com/48e22hpk. 7/n
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by @ErnestArenasSWE tinyurl.com/2ajz58hy, @francis_szele tinyurl.com/43czpcck, @PZandstra & @HDKaul tinyurl.com/4p52jk9f 8/n
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Cahan Lab | at JHMI retweeted
Cell Press@CellPressNews
28 Nov 2022
Submit your research to Stem Cell Reports—the premier society journal for stem cell research and an open access forum communicating basic discoveries in stem cell research, in addition to translational and clinical studies @isscr @martinperajax hubs.li/Q01t6Bgt0
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Cahan Lab | at JHMI retweeted
Himanshu Kaul@HDKaul
3 Nov 2022
Friends, Im excited to share my work linking #GRNs with dynamic #signals via #agents. The #multiscale GARMEN showed how a master GRN can lead to different #tissue structures. We successfully tested signal and transcriptomic perturbation outcomes in vitro bit.ly/3T41hES

Virtual cells in a virtual microenvironment recapitulate early development-like patterns in human...

Here, Kaul and colleagues report on a computational framework by coupling GRN activity with dynamic signaling via agents. They show that a master GRN can lead to different tissues depending on the...

cell.com
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Cahan Lab | at JHMI retweeted
StemCellReports@stemcellreports
4 Oct 2022
We are pleased to announce the call for papers for a new special issue on the clinical translation of PSCs, guest edited by Drs. Shinya Yamanaka and Kazuto Takayama of @CiRA_KU_E . To learn more and sumit - bit.ly/3V1AmLS. @ISSCR @martinperaJAX @CellPress
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M Zamani @NganHuang & R Cheng @cahanlab @HopkinsMedicine ID-ed regulators of endothelial to mesenchymal transition. Exploring #Tgfb & substrate stiffness on #EndMT they found a Mesenchymal-to-endothelial reversion and linked populations to #atherosclerosis onlinelibrary.wiley.com/doi/…
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Cahan Lab | at JHMI retweeted
Peter van Galen@vangalenlab
21 Sep 2022
Single-cell papers that make the count matrices and cell type classifications easily available are 100% more likely to be cited by me. Cell type-specific signature genes are a bonus.
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Cahan Lab | at JHMI retweeted
LSI Exeter@LSI_Exeter
28 Jun 2022
Four permanent posts in interdisciplinary research at the Living Systems Institute - uniting maths, physics, and biology. Apply here; lsi.exeter.ac.uk/join-us/job…
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Cahan Lab | at JHMI retweeted
Martin Pera@martinperaJAX
24 Aug 2022
Entropy sorting of single cell RNA sequencing data reveals the inner cell mass in the human pre-implantation embryo biorxiv.org/content/10.1101/…

Entropy sorting of single cell RNA sequencing data reveals the inner cell mass in the human...

A major challenge in single cell gene expression analysis is to discern meaningful cellular heterogeneity from technical or biological noise. To address this challenge, we present Entropy Sorting, a...

biorxiv.org
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Cahan Lab | at JHMI retweeted
Sanjeev Ranade@SanjeevRanade
26 Jul 2022
Two new pre-prints out today from Srivastava lab where we apply single cell chromatin accessibility and transcriptomics to define mechanisms underlying congenital heart defects arising from genetic and environmental perturbations, respectively. Mine: biorxiv.org/content/10.1101/…

Single Cell Epigenetics Reveal Cell-Cell Communication Networks in Normal and Abnormal Cardiac...

Communication between myriad cell types during organ formation underlies proper morphogenesis[1][1]. In cardiac development, reciprocal signaling between mesoderm progenitors and neural crest cells...

biorxiv.org
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