DOI: 10.6084/m9.figshare.8341088
title: Materials for "Neuron ID dataset facilitates neuronal annotation for whole-brain activity imaging of C. elegans"

description: This dataset is materials for a paper entitled "Neuron ID dataset facilitates neuronal annotation for whole-brain activity imaging of C. elegans"https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-020-0745-2<br>(Preprint on bioRxiv: https://www.biorxiv.org/content/10.1101/698241v2)<br><br>This dataset includes following materials:<br><br>Additional file 0: Dataset S1 (zip): Neuron ID dataset (contains positions and expression patterns) and corresponding static 3D images.Additional file 1: Table S1 (xlsx): Summary of neuron ID dataset including expression patterns of the promoters. Additional file 2: Figure S1 (pdf): Correction of posture of the worms.Additional file 3: Figure S2 (pdf): Performance and robustness of the posture correction.Additional file 4: Table S2 (xlsx): Summary statistics for Additional file 3: Figure S2. Additional file 5: Figure S3 (pdf): Movements of the cells during time-lapse imaging.Additional file 6: Table S3 (xlsx): Summary statistics for Additional file 5: Figure S3. Additional file 7: Figure S4 (pdf): Overlay plot of cell positions for all worms Additional file 8: Figure S5 (pdf): Specific-cell-centered landscape. Additional file 9: Figure S6 (pdf): Less varying neuron pairs.Additional file 10: Figure S7 (pdf): Position of posterior pharyngeal bulb affects cell positionsAdditional file 11: Table S4 (xlsx): Summary statistics for Additional file 10: Figure S7.Additional file 12: Figure S8 (pdf): Stability and sparseness of expression pattern.Additional file 13: Table S5 (xlsx): Evaluation result of promoter combinations.Additional file 14: Figure S9 (pdf): An example fluorescent image of JN3039 strain and annotated cell names.Additional file 15 (zip): Dataset S2: Positions of nuclei and expression patterns of landmark fluorescence in the whole-brain imaging strains as the test data for automatic annotation and corresponding static 3D images.Additional file 16: Figure S10 (pdf): Health of 4D strains.Additional file 17: Table S6 (xlsx): Summary statistics for Additional file 16: Figure S10.Additional file 18: Figure S11 (pdf): Comparison of the synthetic atlas and the neuron ID datasetAdditional file 19: Figure S12 (pdf): Variation of relative position of cell pairsAdditional file 20: Figure S13 (pdf): Error rate of each bipartite matching and majority voting.Additional file 21: Figure S14 (pdf): Relationship between error rate of automatic annotation for JN3039 and detected count in the neuron ID datasetAdditional file 22: Figure S15 (pdf): Error rates of the automatic annotation method for the animals in a microfluidic chip Additional file 23: Dataset S3 (zip): A tutorial for semi-automatic annotation using our software.Additional file 24: Figure S16 (pdf): Correct ratio of automatic annotation and its improvement by manual annotationAdditional file 25: Figure S17 (pdf): Most valuable cells for improving accuracy of automatic annotation Additional file 26: Note S1 (docx): Optimization of parameters for atlas generationAdditional file 27: Dataset S4 (zip): Sequences of the promoters in Table 1.Additional file 28: Dataset S5 (zip): All codes for the GUI RoiEdit3D and analysis pipeline to make figures.