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Single cell profiling of CRISPR/Cas9-induced OTX2 deficient retinas reveals fate switch from restricted progenitors

https://doi.org/10.1101/538710
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/cne.10674openalex-snapshot
Dlx1, Dlx2, Pax6, Brn3b, and Chx10 homeobox gene expression defines the retinal ganglion and inner nuclear layers of the developing and adult mouse retina
inferredcites →https://doi.org/10.1002/cne.21236openalex-snapshot
Heterogeneity of horizontal cells in the chicken retina
inferredcites →https://doi.org/10.1002/dvdy.21895openalex-snapshot
Chick embryo proliferation studies using EdU labeling
inferredcites →https://doi.org/10.1002/dvg.20318openalex-snapshot
Dkk3‐Cre BAC transgenic mouse line: a tool for highly efficient gene deletion in retinal progenitor cells
inferredcites →https://doi.org/10.1002/gene.1015openalex-snapshot
The use of in ovo electroporation for the rapid analysis of neural‐specific murine enhancers
inferredcites →https://doi.org/10.1016/j.cell.2015.05.002openalex-snapshot
Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets
inferredcites →https://doi.org/10.1016/j.cell.2018.06.021openalex-snapshot
Molecular Architecture of the Mouse Nervous System
inferredcites →https://doi.org/10.1016/j.cub.2018.07.062openalex-snapshot
A Single-Cell Transcriptional Atlas of the Developing Murine Cerebellum
inferredcites →https://doi.org/10.1016/j.devcel.2013.06.005openalex-snapshot
Otx2 and Onecut1 Promote the Fates of Cone Photoreceptors and Horizontal Cells and Repress Rod Photoreceptors
inferredcites →https://doi.org/10.1016/j.devcel.2015.08.011openalex-snapshot
The Independent Probabilistic Firing of Transcription Factors: A Paradigm for Clonal Variability in the Zebrafish Retina
inferredcites →https://doi.org/10.1016/j.exer.2013.03.007openalex-snapshot
The homeobox gene Otx2 in development and disease
inferredcites →https://doi.org/10.1016/j.molbrainres.2004.04.001openalex-snapshot
Identification and characterization of novel developmentally regulated neural-specific proteins, BRINP family
inferredcites →https://doi.org/10.1016/j.neuron.2007.09.036openalex-snapshot
Nonapical Symmetric Divisions Underlie Horizontal Cell Layer Formation in the Developing Retina In Vivo
inferredcites →https://doi.org/10.1016/j.neuron.2012.06.033openalex-snapshot
How Variable Clones Build an Invariant Retina
inferredcites →https://doi.org/10.1016/j.tins.2012.05.004openalex-snapshot
Cell fate determination in the vertebrate retina
inferredcites →https://doi.org/10.1016/j.ydbio.2011.09.012openalex-snapshot
Identification of a retina-specific Otx2 enhancer element active in immature developing photoreceptors
inferredcites →https://doi.org/10.1016/j.ydbio.2017.08.036openalex-snapshot
Optimization of CRISPR/Cas9 genome editing for loss-of-function in the early chick embryo
inferredcites →https://doi.org/10.1016/j.ydbio.2018.06.023openalex-snapshot
Fate-restricted retinal progenitor cells adopt a molecular profile and spatial position distinct from multipotent progenitor cells
inferredcites →https://doi.org/10.1016/s0014-5793(97)00313-xopenalex-snapshot
‘Green mice’ as a source of ubiquitous green cells
inferredcites →https://doi.org/10.1016/s0959-437x(02)00318-0openalex-snapshot
The Otx family
inferredcites →https://doi.org/10.1038/328131a0openalex-snapshot
A common progenitor for neurons and glia persists in rat retina late in development
inferredcites →https://doi.org/10.1038/nbt.1754openalex-snapshot
Integrative genomics viewer
inferredcites →https://doi.org/10.1038/nbt.3192openalex-snapshot
Spatial reconstruction of single-cell gene expression data
inferredcites →https://doi.org/10.1038/ncomms14049openalex-snapshot
Massively parallel digital transcriptional profiling of single cells
inferredcites →https://doi.org/10.1038/ng0496-376openalex-snapshot
Ocular retardation mouse caused by Chx10 homeobox null allele: impaired retinal progenitor proliferation and bipolar cell differentiation
inferredcites →https://doi.org/10.1038/nmeth.2089openalex-snapshot
NIH Image to ImageJ: 25 years of image analysis
inferredcites →https://doi.org/10.1038/nn0901-877openalex-snapshot
The fundamental plan of the retina
inferredcites →https://doi.org/10.1038/nn1155openalex-snapshot
Otx2 homeobox gene controls retinal photoreceptor cell fate and pineal gland development
inferredcites →https://doi.org/10.1038/s41587-019-0068-4openalex-snapshot
Characterization of cell fate probabilities in single-cell data with Palantir
inferredcites →https://doi.org/10.1038/s41598-019-45750-7openalex-snapshot
Lineage tracing analysis of cone photoreceptor associated cis-regulatory elements in the developing chicken retina
inferredcites →https://doi.org/10.1073/pnas.1203138109openalex-snapshot
Transcription factor Olig2 defines subpopulations of retinal progenitor cells biased toward specific cell fates
inferredcites →https://doi.org/10.1073/pnas.1303551110openalex-snapshot
Cone photoreceptor types in zebrafish are generated by symmetric terminal divisions of dedicated precursors
inferredcites →https://doi.org/10.1073/pnas.1405354111openalex-snapshot
Onecut1 and Onecut2 redundantly regulate early retinal cell fates during development
inferredcites →https://doi.org/10.1073/pnas.2235688100openalex-snapshot
Electroporation and RNA interference in the rodent retina in vivo and in vitro
inferredcites →https://doi.org/10.1073/pnas.93.2.589openalex-snapshot
Cell fate determination in the vertebrate retina.
inferredcites →https://doi.org/10.1080/713655025openalex-snapshot
Sexing chick embryos: A rapid and simple protocol
inferredcites →https://doi.org/10.1093/nar/gku410openalex-snapshot
CHOPCHOP: a CRISPR/Cas9 and TALEN web tool for genome editing
inferredcites →https://doi.org/10.1093/nar/gkw398openalex-snapshot
CHOPCHOP v2: a web tool for the next generation of CRISPR genome engineering
inferredcites →https://doi.org/10.1101/378950openalex-snapshot
Comprehensive analysis of retinal development at single cell resolution identifies NFI factors as essential for mitotic exit and specification of late-born cells
inferredcites →https://doi.org/10.1101/gad.9.21.2646openalex-snapshot
Mouse Otx2 functions in the formation and patterning of rostral head.
inferredcites →https://doi.org/10.1111/jnc.12521openalex-snapshot
Ectopic expression of transcription factor AP‐2δ in developing retina: effect on PSA‐NCAM and axon routing
inferredcites →https://doi.org/10.1126/science.1231143openalex-snapshot
Multiplex Genome Engineering Using CRISPR/Cas Systems
inferredcites →https://doi.org/10.1126/science.282.5393.1497openalex-snapshot
Requirement for p53 and p21 to Sustain G 2 Arrest After DNA Damage
inferredcites →https://doi.org/10.1128/mcb.01209-07openalex-snapshot
Functional Roles of Otx2 Transcription Factor in Postnatal Mouse Retinal Development
inferredcites →https://doi.org/10.1186/1749-8104-4-14openalex-snapshot
Vsx2 in the zebrafish retina: restricted lineages through derepression
inferredcites →https://doi.org/10.1186/s13064-018-0121-xopenalex-snapshot
Identification and characterization of early photoreceptor cis-regulatory elements and their relation to Onecut1
inferredcites →https://doi.org/10.1242/dev.043968openalex-snapshot
Blimp1 controls photoreceptor versus bipolar cell fate choice during retinal development
inferredcites →https://doi.org/10.1242/dev.064006openalex-snapshot
Ascl1 expression defines a subpopulation of lineage-restricted progenitors in the mammalian retina
inferredcites →https://doi.org/10.1242/dev.121.10.3279openalex-snapshot
Forebrain and midbrain regions are deleted in Otx2−/− mutants due to a defective anterior neuroectoderm specification during gastrulation
inferredcites →https://doi.org/10.1242/dev.122.1.243openalex-snapshot
A targeted mouse Otx2 mutation leads to severe defects in gastrulation and formation of axial mesoderm and to deletion of rostral brain
inferredcites →https://doi.org/10.1242/dev.127.15.3237openalex-snapshot
All Brn3 genes can promote retinal ganglion cell differentiation in the chick
inferredcites →https://doi.org/10.1242/dev.128.11.2019openalex-snapshot
Otx genes are required for tissue specification in the developing eye
inferredcites →https://doi.org/10.1242/dev.128.15.2989openalex-snapshot
Forebrain and midbrain development requires epiblast-restrictedOtx2translational control mediated by its 3′ UTR
inferredcites →https://doi.org/10.1242/dev.142042openalex-snapshot
Regulation of Brn 3b by Dlx 1 and Dlx 2 is required for retinal ganglion cell differentiation in the vertebrate retina
inferredcites →https://doi.org/10.1371/journal.pone.0019685openalex-snapshot
Analysis of Transcriptional Regulatory Pathways of Photoreceptor Genes by Expression Profiling of the Otx2-Deficient Retina
inferredcites →https://doi.org/10.1523/jneurosci.0116-13.2013openalex-snapshot
Onecut1 Is Essential for Horizontal Cell Genesis and Retinal Integrity
inferredcites →https://doi.org/10.1523/jneurosci.0397-08.2008openalex-snapshot
A Core Paired-Type and POU Homeodomain-Containing Transcription Factor Program Drives Retinal Bipolar Cell Gene Expression

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1101/854778openalex-snapshot
Cis-regulatory analysis of Onecut1 expression in fate-restricted retinal progenitor cells
inferred← citeshttps://doi.org/10.1186/s13064-020-00142-wopenalex-snapshot
Cis-regulatory analysis of Onecut1 expression in fate-restricted retinal progenitor cells
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