Overview

Information on published connectomics data related to C. elegans. This is being developed as part of the OpenWorm project.

Please note: this is a Work in Progress! Please contact padraig -at- openworm.org if you are interested in contributing to this work!

block-beta
columns 4

t1["<b>Anatomical - Chemical/electrical</b>"]
t2["<b>Extrasynaptic</b>"]
t4["<b>Gene/protein expression</b>"]
t3["<b>Functional</b>"]

  style t1 fill:#ff6666
  style t2 fill:#99bbff
  style t3 fill:#ff80ff
  style t4 fill:#85e085

block-beta

columns 4

  block:70sA
    columns 1
    space    
    A1("<b><a href='http://openworm.org/ConnectomeToolbox/Albertson_1976/'>Albertson and Thomson 1976</a></b>")
    space space space
  end

  block:70sB
    columns 1
    space
  end

  block:70sC
    columns 1
    space
  end

  block:70sD
    columns 1
    space
  end

  block:80sA
    columns 1
    A("<b><a href='http://openworm.org/ConnectomeToolbox/White_1986/' >White et al. 1986</a></b>")
    space
    B("<b><a href='http://openworm.org/ConnectomeToolbox/Durbin_1987/' >Durbin 1987</a></b>")
    space
    space
  end

  block:80sB
    columns 1
    space
  end

  block:80sC
    columns 1
    space
  end

  block:80sD
    columns 1
    space
  end

  block:90sA
    columns 1
    space
    A2("<b><a href='http://openworm.org/ConnectomeToolbox/Hall_1991/'>Hall & Russell 1991</a></b>") space space space
  end

  block:90sB
    columns 1
    space
  end

  block:90sC
    columns 1
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  end

  block:90sD
    columns 1
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  end

  block:00sA
    columns 1
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  end

  block:00sB
    columns 1
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  end

  block:00sC
    columns 1
    C("<b><a href='http://openworm.org/ConnectomeToolbox/Altun_2009/'>Altun et al. 2009</a></b>")
    space space space
  end

  block:00sD
    columns 1
    space
  end

  block:10sA
    columns 1
    D("<b><a href='http://openworm.org/ConnectomeToolbox/Varshney_2011/'>Varshney et al.2011</a></b>") 
    G("<b><a href='http://openworm.org/ConnectomeToolbox/Cook_2019/'>Cook et al. 2019</a></b>") 
    space
    space
  end

  block:10sB
    columns 1
    E1("<b><a href='http://openworm.org/ConnectomeToolbox/Serrano_2013/'>Serrano-Saiz et al. 2013</a></b>") 
    E("<b><a href='http://openworm.org/ConnectomeToolbox/Pereira_2015/'>Pereira et al. 2015</a></b>")
    E2("<b><a href='http://openworm.org/ConnectomeToolbox/Gendrel_2016/'>Gendrel, Hobert & Atlas 2016</a></b>")
    F("<b><a href='http://openworm.org/ConnectomeToolbox/Bentley_2016/'>Bentley et al. 2016</a></b>")
  end
  block:10sC
    columns 1
    space
  end
  block:10sD
    columns 1
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  end


  block:20sA
    columns 1
    I("<b><a href='http://openworm.org/ConnectomeToolbox/Cook_2020/'>Cook et al. 2020</a></b>")
    J("<b><a href='http://openworm.org/ConnectomeToolbox/Brittin_2021'>Brittin et al. 2021</a></b>")
    K("<b><a href='http://openworm.org/ConnectomeToolbox/Witvliet_2021'>Witvliet et al. 2021</a></b>")
    space
  end    

  block:20sB
    columns 1
    NP("<b><a href='http://openworm.org/ConnectomeToolbox/Ripoll_2023'>Ripoll-Sanchez et al. 2023</a></b>")
    space
    space
    space
  end    

  block:20sC
    columns 1
    L("<b><a href='http://openworm.org/ConnectomeToolbox/Taylor_2021'>Taylor et al. 2021</a></b>")
    M("<b><a href='http://openworm.org/ConnectomeToolbox/Yemini_2021'>Yemini et al. 2021</a></b>")
    N("<b><a href='http://openworm.org/ConnectomeToolbox/Beets_2023'>Beets et al. 2023</a></b>")
    space
  end    
  block:20sD
    columns 1
    H("<b><a href='http://openworm.org/ConnectomeToolbox/Fenyves_2020/'>Fenyves et al.2020</a></b>") 
    P("<b><a href='http://openworm.org/ConnectomeToolbox/Randi_2023'>Randi et al. 2023</a></b>")
    R("<b><a href='http://openworm.org/ConnectomeToolbox/Dag_2023'>Dag et al. 2023</a></b>")
    T("<b><a href='http://openworm.org/ConnectomeToolbox/Atanas_2023'>Atanas et al. 2023</a></b>")
  end     

    E --> H
    E1 --> H
    E2 --> H
    E --> F
    C --> L
    L --> M
    M --> N
    A --> B
    A1 --> A
    A1 --> I
    A  --> A2
    A --> D
    B --> D
    A2 --> D
    A --> G
    A --> I
    A --> J
    A --> F
    D --> F
    A --> NP
    A1 --> NP
    F --> NP
    L --> NP
    K --> NP
    D --> NP
    A --> P
    L --> P
    N --> P
    K --> P
    NP --> P
    F --> P
    M --> R
    T --> R
    A --> R
    K --> R

  style 70sA fill:#eeeeee
  style 70sB fill:#eeeeee
  style 70sC fill:#eeeeee
  style 70sD fill:#eeeeee

  style 80sA fill:#dddddd
  style 80sB fill:#dddddd
  style 80sC fill:#dddddd
  style 80sD fill:#dddddd

  style 90sA fill:#cccccc
  style 90sB fill:#cccccc
  style 90sC fill:#cccccc
  style 90sD fill:#cccccc

  style 00sA fill:#bbbbbb
  style 00sB fill:#bbbbbb
  style 00sC fill:#bbbbbb
  style 00sD fill:#bbbbbb

  style 10sA fill:#aaaaaa
  style 10sB fill:#aaaaaa
  style 10sC fill:#aaaaaa
  style 10sD fill:#aaaaaa

  style 20sA fill:#999999
  style 20sB fill:#999999
  style 20sC fill:#999999
  style 20sD fill:#999999

  style A1 fill:#ff6666
  style A fill:#ff6666
  style B fill:#ff6666
  style A2 fill:#ff6666
  style D fill:#ff6666
  style J fill:#ff6666
  style K fill:#ff6666
  style G fill:#ff6666
  style I fill:#ff6666

  style E fill:#99bbff
  style E1 fill:#99bbff
  style E2 fill:#99bbff
  style F fill:#99bbff
  style NP fill:#99bbff

  style H fill:#ff80ff
  style P fill:#ff80ff
  style R fill:#ff80ff
  style T fill:#ff80ff

  style C fill:#85e085
  style L fill:#85e085
  style M fill:#85e085
  style N fill:#85e085

Another view on the data

%%{ init: { 'flowchart': { 'curve': 'stepAfter' } } }%%
flowchart TD
    classDef anat fill:#ff6666
    classDef gene fill:#85e085
    classDef es fill:#99bbff
    classDef func fill:#ff80ff


    subgraph 1970-1980
    A1["<a href='http://openworm.org/ConnectomeToolbox/Albertson_1976/' >Albertson & Thomson 1976</a>"]:::anat
    end
    subgraph 1980-1990
    A["<a href='http://openworm.org/ConnectomeToolbox/White_1986/' >White et al. 1986</a>"]:::anat & B["<a href='http://openworm.org/ConnectomeToolbox/Durbin_1987/' >Durbin 1987</a>"]:::anat
    end

    subgraph 1990-2000
    A2["<a href='http://openworm.org/ConnectomeToolbox/Hall_1991/' >Hall & Russell 1991</a>"]:::anat
    end

    subgraph 2000-2010
    C["<a href='http://openworm.org/ConnectomeToolbox/Altun_2009/' >Altun et al. 2009</a>"]:::gene 
    end

    subgraph 2010-2020
    D["<a href='http://openworm.org/ConnectomeToolbox/Varshney_2011/' >Varshney et al.2011</a>"]:::anat & E["<a href='http://openworm.org/ConnectomeToolbox/Pereira_2015/' >Pereira et al. 2015</a>"]:::es & E1["<a href='http://openworm.org/ConnectomeToolbox/Serrano_2013/' >Serrano-Saiz et al. 2013</a>"]:::es  & E2["<a href='http://openworm.org/ConnectomeToolbox/Gendrel_2016/' >Gendrel, Hobert & Atlas 2016</a>"]:::es & F["<a href='http://openworm.org/ConnectomeToolbox/Bentley_2016/' >Bentley et al. 2016 </a>"]:::es & G["<a href='http://openworm.org/ConnectomeToolbox/Cook_2019/' >Cook et al. 2019</a>"]:::anat & H["<a href='http://openworm.org/ConnectomeToolbox/Fenyves_2020/' >Fenyves et al.2020</a>"]:::func & I["<a href='http://openworm.org/ConnectomeToolbox/Cook_2020/' >Cook et al. 2020</a>"]:::anat
    end

    subgraph 2020-2030
    J["<a href='http://openworm.org/ConnectomeToolbox/Brittin_2021' >Brittin et al. 2021</a>"]:::anat & K["<a href='http://openworm.org/ConnectomeToolbox/Witvliet_2021' >Witvliet et al. 2021</a>"]:::anat & L["<a href='http://openworm.org/ConnectomeToolbox/Taylor_2021' >Taylor et al. 2021</a>"]:::gene & M["<a href='http://openworm.org/ConnectomeToolbox/Yemini_2021' >Yemini et al. 2021</a>"]:::gene & N["<a href='http://openworm.org/ConnectomeToolbox/Beets_2023' >Beets et al. 2023</a>"]:::gene & P["<a href='http://openworm.org/ConnectomeToolbox/Randi_2023' >Randi et al. 2023</a>"]:::func & NP["<a href='http://openworm.org/ConnectomeToolbox/Ripoll_2023' >Ripoll-Sanchez et al. 2023</a>"]:::es & R["<a href='http://openworm.org/ConnectomeToolbox/Dag_2023' >Dag et al. 2023</a>"]:::func & T["<a href='http://openworm.org/ConnectomeToolbox/Atanas_2023' >Atanas et al. 2023</a>"]:::func
    end     


    E --> H
    E1 --> H
    E2 --> H
    E --> F
    C --> L
    L --> M
    M --> N
    A --> B
    A1 --> A
    A1 --> I
    A  --> A2
    A --> D
    B --> D
    A2 --> D
    A --> G
    A --> I
    A --> J
    A --> F
    D --> F
    A --> NP
    A1 --> NP
    F --> NP
    L --> NP
    K --> NP
    D --> NP
    A --> P
    L --> P
    N --> P
    K --> P
    NP --> P
    F --> P
    M --> R
    T --> R
    A --> R
    K --> R

Datasets

Papers	Features	Datasets
Albertson & Thomson 1976	Anatomical	N/A
White et al. 1986	Anatomical	White_A - White_L4 - White_whole
Durbin 1987	Anatomical	Work in progress: Durbin.txt
Hall & Russell 1991	Anatomical	N/A
Altun et al. 2009	Gene Expression	Work in progress: data
Varshney et al. 2011	Anatomical	Varshney_2011
Pereira et al. 2015	Extrasynaptic	Work in progress: Cholinergic neurons - NT_Map_herm - WormWiring - male_cholinergic - transcriptional_regulators
Bentley et al. 2016	Extrasynaptic	Work in progress: csv
Cook et al. 2019	Anatomical	Cook 2019 Hermaphrodite
Fenyves et al. 2020	Functional	Work in progress: data
Cook et al. 2020	Anatomical	Cook 2020
Brittin et al. 2021	Anatomical	Work in progress: data - parsed
Witvliet et al. 2021	Developmental	Witvliet1 - Witvliet2
Taylor et al. 2021	Gene Expression	Work in progress: data
Yemini et al. 2021	Gene Expression	Work in progress: data
Beets et al. 2023	Gene Expression	Work in progress: data
Dag et al. 2023	Functional	N/A
Atanas et al. 2023	Functional	Work in progress: data
Randi et al. 2023	Functional	WormNeuroAtlas
Ripoll-Sanchez et al. 2023	Functional	Work in progress: data??