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SUMMARY:Zebrahub - Multimodal Zebrafish Developmental Atlas Reveals the St
 ate Transition Dynamics of Late Vertebrate Pluripotent Axial Progenitors.
DTSTART:20231017T140000
DTEND:20231017T150000
DTSTAMP:20260511T081225Z
UID:893ee98b84c2c5996e27409c73c23a4c0149e51ada019e880d7b4bb0
CATEGORIES:Conferences - Seminars
DESCRIPTION:Loic Royer - Royer first studied engineering\, math\, and phys
 ics in his native France. He then obtained a master’s degree in artifici
 al intelligence\, specializing in cognitive robotics\, followed by a Ph.D.
  in bioinformatics from the Dresden University of Technology in Germany. A
 s a member of Gene Myers’ lab\, first at HHMI’s Janelia Research Campu
 s and then at the Max Planck Institute of Molecular Cell Biology and Genet
 ics\, he developed the first “self-driving” multi-view light-sheet mic
 roscope. Royer is fascinated by a seemingly simple but quite complex quest
 ion: How do organisms develop from a single cell into a fully functional b
 ody with billions of self-organizing cells that form tissues and have diff
 erent functions? He believes that solving this question will require exper
 tise across computer science\, advanced microscopy\, and biology. To that 
 end\, Royer’s pluridisciplinary team designs and builds novel state-of-t
 he-art light-sheet microscopes\, develops deep learning-based image proces
 sing and analysis algorithms\, and is using these technologies to build a 
 time-resolved and multimodal atlas of vertebrate development\, using zebra
 fish as model organisms.\nElucidating the developmental processes of organ
 isms requires a comprehensive understanding of cellular lineages in the sp
 atial\, temporal\, and molecular domains. In this study\, we introduce Zeb
 rahub\, a dynamic atlas of zebrafish embryonic development that integrates
  single-cell sequencing time course data with lineage reconstructions faci
 litated by light-sheet microscopy. This atlas offers high-resolution and i
 n-depth molecular insights into zebrafish development\, achieved through t
 he sequencing of individual embryos across ten developmental stages\, comp
 lemented by trajectory reconstructions. Zebrahub also incorporates an inte
 ractive tool to navigate the complex cellular flows and lineages derived f
 rom light-sheet microscopy data\, enabling in-silico fate mapping experime
 nts. We will also demonstrate recent results on reconstructing cellular hi
 stories by explicitly linking scRNAseq-derived transcriptomes with image-b
 ased lineages and spatial omics. Finally\, to demonstrate the versatility 
 of our multi-modal resource\, we utilize Zebrahub to provide fresh insight
 s into the pluripotency of Neuro-Mesodermal Progenitors (NMPs). Our public
 ly accessible web-based platform\, Zebrahub\, is a foundational resource f
 or studying developmental processes at both transcriptional and spatiotemp
 oral levels\, providing researchers with an integrated approach to explori
 ng and analyzing the complexities of cellular lineages during zebrafish em
 bryogenesis.\n\n 
LOCATION:SV 1717 https://plan.epfl.ch/?room==SV%201717
STATUS:CONFIRMED
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