1. ABOUT THE DATASET -------------------- Title: Spike filtering at the dorsal root ganglia Creator(s): Han Hao [1], Rosmaliza Ramli [2,3], Caixue Wang [1], Chao Liu [4], Shihab Shah [2], Pierce Mullen [2], Varinder Lall [2], Frederick Jones [2], Jicheng Shao [1], Hailin Zhang [1], David B. Jaffe [5], Xiaona Du [1], Nikita Gamper [1,2] Organisation(s): 1 Department of Pharmacology, Hebei Medical University; The Key Laboratory of Neural and Vascular Biology, Ministry of Education, China; The Key Laboratory of New Drug Pharmacology and Toxicology, Hebei Province; Shijiazhuang 050011 China. 2 Faculty of Biological Sciences, University of Leeds, Leeds LS2 9JT, UK. 3 School of Dental Sciences, Universiti Sains Malaysia, Kelantan 16150, Malaysia. 4 Department of Animal care, Hebei Medical University; The Key Laboratory of Experimental Animal, Hebei Province; Shijiazhuang, 050011 China. 5 Department of Neuroscience, Developmental and Regenerative Biology, The University of Texas at San Antonio, San Antonio, Texas 78249 Rights-holder(s):Copyright 2022 University of Leeds Publication Year: 2022 Description: This is a collection of metadata files corresponding to the figures in the PLOS Biology article "Dorsal root ganglia control nociceptive input to the central nervous system" by Hao H, Ramli R, Wang C, Liu C, Shah S, Mullen P, Lall V, Jones F, Shao J, Zhang H, Jaffe DB, Gamper N, Du X (2022). Data are presented in Excel files, each file correspond to a single figure (e.g. file "Metadata-Fig1.xlsx" contains all metadata used to plot graphs in the Figure 1; file "Metadata-Suppl-Fig1.xlsx" contains data for Supplemental Figure 1 etc. If a figure contains multiple graphs, the corresponding file will have multiple spreadsheets, named according to the panel it corresponds to (e.g. sheet "1E" in the file "Metadata-Fig1.xlsx" corresponds to the panel E in the Figure 1). Cite as: Han Hao, Rosmaliza Ramli, Caixue Wang, Chao Liu, Shihab Shah, Pierce Mullen, Varinder Lall, Frederick Jones, Jicheng Shao, Hailin Zhang, David B. Jaffe, Xiaona Du, Nikita Gamper (2022): Spike filtering at the dorsal root ganglia. [Dataset]. https://doi.org/10.5518/1261 Related publication: 1 Hao H, Ramli R, Wang C, Liu C, Shah S, Mullen P, Lall V, Jones F, Shao J, Zhang H, Jaffe DB, Gamper N, Du X (2022) Dorsal root ganglia control nociceptive input to the central nervous system. PLOS Biology (pending) 2 Hao H, Ramli R, Wang C, Liu C, Shah S, Mullen P, Lall V, Jones F, Shao J, Zhang H, Jaffe DB, Gamper N, Du X (2022) Dorsal root ganglia control nociceptive input to the central nervous system. BioRxiv doi: https://doi.org/10.1101/2021.07.14.452325 Contact: Nikita Gamper (n.gamper@leeds.ac.uk) 2. TERMS OF USE --------------- Copyright 2022 University of Leeds. This dataset is licensed under a Creative Commons Attribution 4.0 International Licence: https://creativecommons.org/licenses/by/4.0/ 3. PROJECT AND FUNDING INFORMATION ---------------------------------- National Natural Science Foundation of China grants 84870872, 313400048 (X.D.), grants 91732108, 81871075 (H.Z.) Key Basic Research Project of Applied Basic Research Program of Hebei Province grant 16967712D (X.D.) Science Fund for Creative Research Groups of Natural Science Foundation of Hebei Province grant H2020206474 (X.D.) S&T Program of Hebei Province grant 193977144D (H.Z.) Innovation fund for graduate students of Hebei Province grant CXZZBS2018077 (H.H.) Wellcome Trust Investigator Award 212302/Z/18/Z (N.G.) Medical Research Council project grant MR/V012738/1 (N.G.) 4. CONTENTS ----------- File listing Metadata-Fig1.xlsx [Metadata for Figure 1 of Hao et al. PLOS Biol (2022)] Metadata-Fig2.xlsx [Metadata for Figure 2 of Hao et al. PLOS Biol (2022)] Metadata-Fig3.xlsx [Metadata for Figure 3 of Hao et al. PLOS Biol (2022)] Metadata-Fig4.xlsx [Metadata for Figure 4 of Hao et al. PLOS Biol (2022)] Metadata-Fig5.xlsx [Metadata for Figure 5 of Hao et al. PLOS Biol (2022)] Metadata-Fig6.xlsx [Metadata for Figure 6 of Hao et al. PLOS Biol (2022)] Metadata-Fig7.xlsx [Metadata for Figure 7 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig1.xlsx [Metadata for Supplemental Figure 1 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig2.xlsx [Metadata for Supplemental Figure 2 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig3.xlsx [Metadata for Supplemental Figure 3 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig4.xlsx [Metadata for Supplemental Figure 4 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig5.xlsx [Metadata for Supplemental Figure 5 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig6.xlsx [Metadata for Supplemental Figure 6 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig7.xlsx [Metadata for Supplemental Figure 7 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig8.xlsx [Metadata for Supplemental Figure 8 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig9.xlsx [Metadata for Supplemental Figure 9 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig10.xlsx [Metadata for Supplemental Figure 10 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig11.xlsx [Metadata for Supplemental Figure 11 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig12.xlsx [Metadata for Supplemental Figure 12 of Hao et al. PLOS Biol (2022)] Metadata-Suppl-Fig13.xlsx [Metadata for Supplemental Figure 13 of Hao et al. PLOS Biol (2022)] 5. METHODS ---------- Full description of methods used to produce the above datasets is provided in the Hao et al. PLOS Biol (2022) and in the corresponding BioRxiv preprint [doi: https://doi.org/10.1101/2021.07.14.452325]. Please also refer to the legends to the corresponding figures in the above documents for all the necessary details and labelling. 6. COMMENTS ----------- Code and instructions for the Spike sorting and analysis are provided in GitHub repository https://doi.org/10.5281/zenodo.7350612 Fig.2A-E. These were created using the matplotlib and seaborn libraries and can be reproduced by running the scripts or Jupyter notebook “Analysis (060720).ipynb” in the GitHub repository DOI:10.5281/zenodo.7350612. Panels 2A and 2C are from raw data and spiketrains that are saved in Neuroscience Information Exchange (NIX) format as “Fig2.blk” in folder NIX_data (DOI:10.5281/zenodo.7350612). These can be accessed using python and by following the jupyter notebook in the repository (DOI:10.5281/zenodo.7350612). Panel 2C was created by using the command spike_analysis() in sa_core.py on Github. Panles B, D, E were created in python from data stored in “Fig2.blk” with scripts in the Github repository. Fig.S5 A-B. Panel A was produced by running the spike_analysis() function in sa_core.py during the spike matching process. Panel B was produced by running the simulation notebook (1.5cm inter electrode sim.ipynb) in the github repository. Fig. S6 A-D. Panel A was produced by the python function spike_analysis() in sa_core.py (in Github repository DOI:10.5281/zenodo.7350612) from Suppl-FigS6.blk in NIX_data. Panels B-D were created in python from data stored in “FigS6.blk” with scripts in the Github repository (DOI:10.5281/zenodo.7350612). Fig. S7. Panel A was produced in Jupyter notebook “Analysis (060720).ipynb by extracting the waveforms from the NIX file from each recording. Panel B was created in python using matplotlib from the metadata in Metadata-Suppl-Fig6.xlsx. Panel C was created in python from the instantaneous firing rates calculated from the NIX recording file and saved in Metadata-Suppl-Fig6.xlsx. Code and instructions for the computer modeling of t-junctional filtering (Fig. 6F-I, Fig. S13) are provided in GitHub repository https://doi.org/10.5281/zenodo.7373095