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This data set includes the data for Experiment 1 and 2 of the study 'Speech Fine Structure Contains Critical Temporal Cues to Support Speech Segmentation'. The stimuli and related MATLAB scripts for processing the stimuli are also included.

This upload is a supplementary dataset for the following preprint: N. Trebesch and E. Tajkhorshid. "Structure Reveals Homology in Elevator Transporters." bioRxiv. (2023). DOI: 10.1101/2023.06.14.544989. Please see the preprint for the methods, analysis, and discussion associated with this dataset.

This dataset contains the raw, unprocessed immunofluorescence, live-cell imaging and Western blot data for the manuscript entitled: Interactome rewiring following pharmacological targeting of BET bromodomains. All methods employed to generate this dataset can be found in the accompanying manuscript and supplemental material.

The immortalized human ReNcell VM cell line represents a reproducible and easy-to-propagate cell culture system for studying the differentiation of neural progenitors. To better characterize the starting line and its subsequent differentiation, we assessed protein and phospho-protein levels and cell morphology over a 15-day period during which ReNcell progenitors differentiated into neurons, astrocytes and oligodendrocytes. Five of the resulting datasets measured protein levels or states of phosphorylation based on tandem-mass-tag (TMT) mass spectrometry and four datasets characterized cellular phenotypes using high-content microscopy. Proteomic analysis revealed reproducible changes in pathways responsible for cytoskeletal rearrangement, cell phase transitions, neuronal migration, glial differentiation, neurotrophic signalling and extracellular matrix regulation. Proteomic and imaging data revealed accelerated differentiation in cells treated with the poly-selective CDK and GSK3 inhibitor kenpaullone or the HMG-CoA reductase inhibitor mevastatin, both of which have previously been reported to promote neural differentiation. These data provide in-depth information on the ReNcell progenitor state and on neural differentiation in the presence and absence of drugs, setting the stage for functional studies.

Additional file 3: Table 2: ToxR tool questions. The 21 questions used for the ToxR quality assessment

This zip file contains all Matlab scripts involved in the analytical methods in manuscript with a detailed descriptive list in a docx file. It also has a "synapse.txt' file containing all localization coordinates of RIM1/2 and PSD-95 (labeled as 647 and 561, respectively in the channel column) in an example synapse.

Title: Domestic Indoor PM and Childhood Asthma Morbidity (DISCOVER Study) Species: Homo sapiens Number of samples: 732 Number of named analytes: 26 Datasource url: https://hheardatacenter.mssm.edu/PublicFile/ViewPublicFile?projectid=35

This directory contains all files to analyze the aromatic, polar, catalytic, and ligand-binding residues as well as overall protein structure as presented in Supplemental Figure 5 in the manuscript Díaz et al. (2023). Structure models were analyzed in PyMOL. Figures were compiled using Adobe Illustrator. Contact: Roberto Efraín Díaz, robertoefrain.diaz@ucsf.edu James Fraser, jfraser@fraserlab.com {"references": ["D\u00edaz, Roberto Efra\u00edn et al. (2023). Structural characterization of ligand binding and pH-specific enzymatic activity of mouse Acidic Mammalian Chitinase."]}