PEC package preprints

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This is the page gives an overview of the Yale contribution to Dec. '18 PsychENCODE rollout. (This is a "private page" to those who have the link.)
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This is the page gives an overview of the Yale contribution to Dec. '18 PsychENCODE rollout.  
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(This is a '''"private page"''' to those who have the link. Please do NOT redistribute material on this page without explicit permission.)
== PsychENCODE introduction ==
== PsychENCODE introduction ==
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*[http://files.gersteinlab.org/public-docs/2018/11.29/aaw0544_ArticleContent-further-suggestions-28nov18.notrk.docx  ''Introduction (draft as of 28-Nov.)'']
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*[http://files.gersteinlab.org/public-docs/2018/11.29/aaw0544_ArticleContent-further-suggestions-28nov18.notrk.docx  Draft of introduction as of 28-Nov.]
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== Capstone papers from Yale==
== Capstone papers from Yale==
*Developmental Capstone - [http://files.gersteinlab.org/public-docs/2018/11.19/Li_S18_aat7615_Combined.pdf '''Integrative Functional Genomic Analysis of Human Brain Development and Neuropsychiatric Risk''']
*Developmental Capstone - [http://files.gersteinlab.org/public-docs/2018/11.19/Li_S18_aat7615_Combined.pdf '''Integrative Functional Genomic Analysis of Human Brain Development and Neuropsychiatric Risk''']
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*Adult Capstone - [http://files.gersteinlab.org/public-docs/2018/11.20/Wang_S18_aat8464_Combined_nofig.pdf '''Comprehensive functional genomic resource and integrative model for the human brain''']
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**[http://development.psychencode.org/ Development.psychencode.org] & [http://brainspan.org/ BrainSpan.org]
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**Main text [http://files.gersteinlab.org/public-docs/2018/11.20/Wang_S18_aat8464_Combined_fig.pdf '''Figures''']
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*Adult Capstone - [http://files.gersteinlab.org/public-docs/2018/11.20/Wang_S18_aat8464_Combined_nofig.pdf '''Comprehensive functional genomic resource and integrative model for the human brain''']  
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**[http://files.gersteinlab.org/public-docs/2018/11.20/capstone4-summary-text.pdf '''One page summary'''] (Summary [http://files.gersteinlab.org/public-docs/2018/12.05/capstone4-summary-graphic-Screenshot.png Figure])
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**Main text: [https://www.dropbox.com/s/pm08ztoffxvg603/aat8464_galley_revised.pdf?dl=0 '''Proofs'''], [http://files.gersteinlab.org/public-docs/2018/12.05/Wang_S18_aat8464_Combined_fig_resized2.pdf Figures]
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**'''One page summary''': [https://www.dropbox.com/s/z3rotgy5nx5hrg7/aat8464_summary_revised.pdf?dl=0 '''Proofs'''], [http://files.gersteinlab.org/public-docs/2018/11.20/capstone4-summary-text.pdf Text], [http://files.gersteinlab.org/public-docs/2018/12.05/capstone4-summary-graphic-Screenshot.png Figure]
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**Fun pics of  cell-type specfic regulatory networks, based on single-cell data ([https://www.dropbox.com/s/ttnoefsjmux79kn/celltype_GRN_forpress.jpg?dl=0 Big JPEG Wheel]) ([http://files.gersteinlab.org/public-docs/2018/12.05/CellType_Rasterized.pdf PDF blow-ups])
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**Lectures on the Adult Capstone: [http://lectures.gersteinlab.org/summary/Using-population-scale-functional-genomics-mental-disease-n-exploiting-data-exhaust-20181025-i0sigma/ i0sigma], [http://lectures.gersteinlab.org/summary/Pop-scale-genomics-for-mental-disease-n-privacy-risks--20180921-i0mssm18/ i0mssm18]
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**[http://resource.psychencode.org/ '''Resource'''.psychencode.org]
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== Other main Yale papers ==
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== Other Yale papers ==
*[http://files.gersteinlab.org/public-docs/2018/11.20/Amiri_S18_aat6720_CombinedPDF.pdf '''Transcriptome and epigenome landscape of human cortical development modeled in brain organoids''']
*[http://files.gersteinlab.org/public-docs/2018/11.20/Amiri_S18_aat6720_CombinedPDF.pdf '''Transcriptome and epigenome landscape of human cortical development modeled in brain organoids''']
**[http://files.gersteinlab.org/public-docs/2018/11.20/Amiri_S18_aat6720_OnePageSummary.pdf '''One page summary''']
**[http://files.gersteinlab.org/public-docs/2018/11.20/Amiri_S18_aat6720_OnePageSummary.pdf '''One page summary''']
*[http://files.gersteinlab.org/public-docs/2018/11.19/Zhu_S18_aat8077_CombinedPDF_v6.pdf '''Spatiotemporal transcriptomic divergence across human and macaque brain development''']
*[http://files.gersteinlab.org/public-docs/2018/11.19/Zhu_S18_aat8077_CombinedPDF_v6.pdf '''Spatiotemporal transcriptomic divergence across human and macaque brain development''']
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**[http://evolution.psychencode.org/ Evolution.psychencode.org]
==Listing of all the Papers in Science==
==Listing of all the Papers in Science==
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*Capstones
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Capstones
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# Li et al, aat7615, Integrative Functional Genomic Analysis of Human Brain Development and Neuropsychiatric Risk.  
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# Gandal et al, aat8127, Transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder
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1.    Li et al, aat7615, Integrative Functional Genomic Analysis of Human Brain Development and Neuropsychiatric Risk.  
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# Wang et al, aat8464, Comprehensive functional genomic resource and integrative model for the human brain.
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*Other Papers
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2.    Gandal et al, aat8127, Transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder
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# Zhu et al, aat8077, Spatiotemporal transcriptomic divergence across human and macaque brain development.  
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# Amiri et al, aat6720, Transcriptome and epigenome landscape of human cortical development modeled in brain organoids.  
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3.    Wang et al, aat8464, Comprehensive functional genomic resource and integrative model for the human brain.
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# Rajarajan et al, aat4311, Neuron-specific Signatures in the Chromosomal Connectome Associated with Schizophrenia Risk.  
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# An et al, aat6576, Genome-wide de novo risk score implicates promoter variation in autism spectrum disorder.
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Other Papers
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4.    Zhu et al, aat8077, Spatiotemporal transcriptomic divergence across human and macaque brain development.  
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5.    Amiri et al, aat6720, Transcriptome and epigenome landscape of human cortical development modeled in brain organoids.  
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6.    Rajarajan et al, aat4311, Neuron-specific Signatures in the Chromosomal Connectome Associated with Schizophrenia Risk.  
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7.    An et al, aat6576, Genome-wide de novo risk score implicates promoter variation in autism spectrum disorder.
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Latest revision as of 19:01, 22 February 2020

This is the page gives an overview of the Yale contribution to Dec. '18 PsychENCODE rollout.

testredirect

(This is a "private page" to those who have the link. Please do NOT redistribute material on this page without explicit permission.)

Contents

PsychENCODE introduction

Capstone papers from Yale

Other Yale papers

Listing of all the Papers in Science

  • Capstones
  1. Li et al, aat7615, Integrative Functional Genomic Analysis of Human Brain Development and Neuropsychiatric Risk.
  2. Gandal et al, aat8127, Transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder
  3. Wang et al, aat8464, Comprehensive functional genomic resource and integrative model for the human brain.
  • Other Papers
  1. Zhu et al, aat8077, Spatiotemporal transcriptomic divergence across human and macaque brain development.
  2. Amiri et al, aat6720, Transcriptome and epigenome landscape of human cortical development modeled in brain organoids.
  3. Rajarajan et al, aat4311, Neuron-specific Signatures in the Chromosomal Connectome Associated with Schizophrenia Risk.
  4. An et al, aat6576, Genome-wide de novo risk score implicates promoter variation in autism spectrum disorder.
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