Data from: Layer 6 corticocortical neurons are a major route for intra and interhemispheric feedback
Data files
Mar 25, 2025 version files 17.35 MB
-
cortical_flatmap.svg
188.28 KB
-
Data_SW_20-02-Apr-2024.mat
6.35 MB
-
delta_layers_cortex.csv
8.43 KB
-
Figure_1figure_supplement_1–Source_Data_1.xlsx
8.52 KB
-
Figure_1figure_supplement_2–Source_Data_1.xlsx
10.29 KB
-
Figure_1figure_supplement_3–Source_Data_1.xlsx
9.82 KB
-
Figure_1figure_supplement_4–Source_Data_1.xlsx
8.44 KB
-
Figure_1Source_Data_1.xlsx
10.53 MB
-
Figure_2Source_Data_1.xlsx
16.38 KB
-
Figure_3Source_Data_1.xlsx
32.19 KB
-
Figure_4figure_supplement_1–Source_Data_1.xlsx
10.41 KB
-
Figure_4figure_supplement_2–Source_Data_1.xlsx
16.88 KB
-
Figure_4Source_Data_1.xlsx
74.04 KB
-
Figure_5Source_Data_1.xlsx
39.19 KB
-
Figure_6Source_Data_1.xlsx
25.26 KB
-
GAD_overlap.csv
135 B
-
injection_bolus.csv
185 B
-
injection_quant.csv
798 B
-
ipsi_contra_cortex_homo_excluded.csv
3.62 KB
-
ipsi_contra_cortex_homo_included.csv
3.65 KB
-
names_abbreviations.csv
2.69 KB
-
readme_data_structure_exp_Weiler25elife.txt
2.29 KB
-
README.md
7.30 KB
Abstract
The neocortex comprises anatomically discrete yet interconnected areas that are symmetrically located across the two hemispheres. Determining the logic of these macrocircuits is necessary for understanding high level brain function. Here we have mapped the areal and laminar organization of the ipsilateral and contralateral cortical projection onto the primary visual, somatosensory and motor cortices in mice. We find that although the ipsilateral hemisphere is the primary source of cortical input, there is substantial contralateral symmetry regarding the relative contribution and areal identity of input. Laminar analysis of these input areas show that excitatory Layer 6 corticocortical cells (L6 CCs) are a major projection pathway within and between the two hemispheres. Analysis of the relative contribution of inputs from supra- (feedforward) and infra-granular (feedback) layers, reveals that contra-hemispheric projections reflect a dominant feedback organization compared to their ipsi-cortical counterpart. The magnitude of the interhemispheric difference in hierarchy was largest for sensory and motor projection areas compared to frontal, medial or lateral brain areas due to a proportional increase in input from L6 neurons. L6 CCs therefore not only mediate long-range cortical communication but also reflect its inherent feedback organization.
https://doi.org/10.5061/dryad.8kprr4xzd
Description of the data and file structure
This is the explanation of the data structure and CSV files for the manuscript:
Layer 6 corticocortical neurons are a major route for intra and interhemispheric feedback
Simon Weiler, Manuel Teichert and Troy W. Margrie
Data_structure: Data_SW_20-02-Apr-2024.mat
Explanation of 12 fields in mat structure:
1) animal_name: name of animal
2) recording_date: date of recording of serial2p data
3) virustype: 1=retro; 10=retro outlier example
4) area=injection area; 0=mono VISp, 1=bino VISp, 2=SSpfb, 3=MOp
5) hemisphere=injection hemisphere; 0= right 1= left
6) gender= male or female; 0= F; 1= M
7) age= age of perfusion in weeks
8) area_names_1-xx= brain area name
9) ipsi_cellnr_1_xx = cell numbers ipsi in the given area
10) contra_cellnr_1_xx = cell numbers contra in the given area
11) ipsi_cellden_1_xx = cell density ipsi in the given area
12) contra_cellden_1_xx = cell density contra in the given area
CSV file: names_abbreviations.csv
First column: number of cortical areas
Second column: abbreviation of cortical name
Third column: full cortical name
Fourth column: x-coordinate of the cortical area in the flatmap
Fifth column: y-coordinate of the cortical area in the flatmap
CSV file: GAD_overlap.csv
First column: mean overlap fraction for L2/3, L4, L5, L6
Second column: sem overlap fraction for L2/3, L4, L5, L6
Third column, first row: Overall mean overlap fraction
Fourth column, first row: Overall sem overlap fraction
CSV file: injection_bolus.csv
First column: volume per viral injection for VISp
Second column: volume per viral injection for SSp-bfd
Third column: volume per viral injection for MOp
Fourth column: volume per viral injection for single oultier animal where injection was mainly in MOs
CSV file: injection_quant.csv
Percentgae of bolus volume in different brain areas for MOp, SSp-bfd and VISp
CSV files: ipsi_contra_homo_excluded and ipsi_contra_homo_included.csv
Area abbreviations and fraction of neurons excluding or including homotopic area for VISp, SSp-bfd, MOp
We also provide the cortical flatmap as svg. (please see cortical flatmap: https://ccf-streamlines.readthedocs.io/en/latest/data_files.html#data-files)
Some files contain NaNs. In this case the data was either not collected or did not pass the threshold criteria.
Files and variables
File: cortical_flatmap.svg
Description: svg of cortical flatmap
File: delta_layers_cortex.csv
Description: Relates to the data shown in Figure 6 C + statistical test results
File: Figure_1figure_supplement_1–Source_Data_1.xlsx
Description: Source data for Figure_1-Figure_supplement_1
Variables
- Data for panel B
File: Figure_1figure_supplement_2–Source_Data_1.xlsx
Description: Source data for Figure_1-Figure_supplement_2
Variables
- Data for panel B, C and D
File: Figure_1figure_supplement_3–Source_Data_1.xlsx
Description: Source data for Figure_1-Figure_supplement_3
Variables
- Data for panel B
File: Data_SW_20-02-Apr-2024.mat
Description: Matlab structure for data analysis and figure display
Variables
1) animal_name: name of animal
2) recording_date: date of recording of serial2p data
3) virustype: 1=retro; 10=retro outlier example
4) area=injection area; 0=mono VISp, 1=bino VISp, 2=SSpfb, 3=MOp
5) hemisphere=injection hemisphere; 0= right 1= left
6) gender= male or female; 0= F; 1= M
7) age= age of perfusion in weeks
8) area_names_1-xx= brain area name
9) ipsi_cellnr_1_xx = cell numbers ipsi in the given area
10) contra_cellnr_1_xx = cell numbers contra in the given area
11) ipsi_cellden_1_xx = cell density ipsi in the given area
12) contra_cellden_1_xx = cell density contra in the given area
File: Figure_1figure_supplement_4–Source_Data_1.xlsx
Description: Source data for Figure_1-Figure_supplement_4
Variables
- Data for panel C
File: Figure_3Source_Data_1.xlsx
Description: Source data for Figure 3
Variables
- Data for all panels
File: Figure_4figure_supplement_2–Source_Data_1.xlsx
Description: Source data for Figure_4-Figure_supplement_2
Variables
- Data for all panels
File: Figure_4figure_supplement_1–Source_Data_1.xlsx
Description: Source data for Figure_4-Figure_supplement_1
Variables
- Data for all panels
File: Figure_2Source_Data_1.xlsx
Description: Source data for Figure 2
Variables
- Data for all panels
File: Figure_5Source_Data_1.xlsx
Description: Source data for Figure 5
Variables
- Data for all panels
File: Figure_6Source_Data_1.xlsx
Description: Source data for Figure 6
Variables
- Data for all panels
File: Figure_4Source_Data_1.xlsx
Description: Source data for Figure 4
Variables
- Data for all panels
File: GAD_overlap.csv
Description: GAD overlap across layers
File: injection_bolus.csv
Description: Injection volumes per animal
File: readme_data_structure_exp_Weiler25elife.txt
Description: Explenation of data structures
Variables
File: injection_quant.csv
Description: Injection volumes in neighbouring areas
Variables
File: Figure_1Source_Data_1.xlsx
Description: Source data for Figure 1
Variables
- Data for all panels
File: ipsi_contra_cortex_homo_excluded.csv
Description: Relative cell counts in each cortical area normalized for each hemisphere, excluding homotopic area
File: ipsi_contra_cortex_homo_included.csv
Description: Relative cell counts in each cortical area normalized for each hemisphere, including homotopic area
File: names_abbreviations.csv
Description: Abrreviation and coordinates of cortical brain areas
Code/software
Code is located at: https://github.com/simonweiler/layer6_anatomy
MATLAB 2024b needed + following Matlab dependencies:
1) uipickfiles: https://uk.mathworks.com/matlabcentral/fileexchange/10867-uipickfiles-uigetfile-on-steroids
2) plotSpread: https://uk.mathworks.com/matlabcentral/fileexchange/37105-plot-spread-points-beeswarm-plot
3) ploterr: https://uk.mathworks.com/matlabcentral/fileexchange/22216-ploterr
4) 200 colormap: https://uk.mathworks.com/matlabcentral/fileexchange/120088-200-colormap
5) offsetAxes: https://uk.mathworks.com/matlabcentral/fileexchange/52351-offsetaxes-ax
6) linspecer: https://uk.mathworks.com/matlabcentral/fileexchange/42673-beautiful-and-distinguishable-line-colors-colormap
7) cmap: https://uk.mathworks.com/matlabcentral/fileexchange/42450-custom-colormap
Access information
Other publicly accessible locations of the data:
-
Figshare link: https://doi.org/10.6084/m9.figshare.28486145
Whole-brain retrograde tracing.