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SUMMARY:Modeling cellular state and dynamics in single cell genomics - Pro
 fessor Fabian Theis (Institute of Computational Biology\, Helmholtz Zentru
 m Muenchen\, Germany)
DTSTART;VALUE=DATE-TIME:20201202T133000Z
DTEND;VALUE=DATE-TIME:20201202T143000Z
UID:https://talks.ox.ac.uk/talks/id/1fe94852-2787-40f5-a6e5-5c41ebff2dfa/
DESCRIPTION:Modeling cellular state as well as dynamics e.g. during differ
 entiation or in response to perturbations is a central goal of computation
 al biology. Single-cell technologies now give us easy and large-scale acce
 ss to state observations on the transcriptomic and more recently also epig
 enomic level. In particular\, they allow resolving potential heterogeneiti
 es due to asynchronicity of differentiating or responding cells\, and prof
 iles across multiple conditions such as time points\, space and replicates
  are being generated. \n\nIn this talk I will shortly review scVelo\, our 
 recent model for dynamic RNA velocity\, allowing estimation of gene-specif
 ic transcription and splicing rates\, and illustrate its use to estimate a
  shared latent time in pancreatic endocrinogenesis. I will then show CellR
 ank\, a probabilistic model based on Markov chains which makes use of both
  transcriptomic similarities as well as RNA velocity to infer developmenta
 l start- and endpoints and assign lineages in a probabilistic manner. It a
 llows users to gain insights into the timing of endocrine lineage commitme
 nt and recapitulates gene expression trends towards developmental endpoint
 s. \n\nWhile the above approaches focus on individual gene expression mode
 ls\, recently latent space modeling and manifold learning have become a po
 pular tool to learn overall variation in single cell gene expression. I wi
 ll wrap by briefly discussing how these tools can be used to integrate sin
 gle cell RNA-seq data sets across multiple labs in a privacy aware manner.
 \nSpeakers:\nProfessor Fabian Theis (Institute of Computational Biology\, 
 Helmholtz Zentrum Muenchen\, Germany)
LOCATION:Venue to be announced
TZID:Europe/London
URL:https://talks.ox.ac.uk/talks/id/1fe94852-2787-40f5-a6e5-5c41ebff2dfa/
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DESCRIPTION:Talk:Modeling cellular state and dynamics in single cell genom
 ics - Professor Fabian Theis (Institute of Computational Biology\, Helmhol
 tz Zentrum Muenchen\, Germany)
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BEGIN:VEVENT
SUMMARY:Characterising transcriptional heterogeneities during cellular dif
 ferentiation - Professor Fabian Theis (Institute of Computational Biology\
 , Helmholtz Zentrum Muenchen\, Germany)
DTSTART;VALUE=DATE-TIME:20160912T130000
DTEND;VALUE=DATE-TIME:20160912T140000
UID:https://talks.ox.ac.uk/talks/id/d46c5720-554e-4b4c-9c83-efdc6bb7522f/
DESCRIPTION:\nSpeakers:\nProfessor Fabian Theis (Institute of Computationa
 l Biology\, Helmholtz Zentrum Muenchen\, Germany)
LOCATION:MRC Weatherall Institute of Molecular Medicine (Seminar room)\, H
 eadington OX3 9DS
TZID:Europe/London
URL:https://talks.ox.ac.uk/talks/id/d46c5720-554e-4b4c-9c83-efdc6bb7522f/
BEGIN:VALARM
ACTION:display
DESCRIPTION:Talk:Characterising transcriptional heterogeneities during cel
 lular differentiation - Professor Fabian Theis (Institute of Computational
  Biology\, Helmholtz Zentrum Muenchen\, Germany)
TRIGGER:-PT1H
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