cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7057076
title: hiPSC 3D immunofluorescence images, test data set 2x2, 10Z

description: Example dataset of human induced pluripotent stem cells, imaged at 40x magnification with a Yokogawa CV7000. This is a small subset of a larger experiment intended as a test dataset for Fractal: https://github.com/fractal-analytics-platform/fractal 3 Channels were imaged: - C01: DAPI, nuclear stain - C02: nanog, antibody staining with Bio-Techne AG, AF1997-SP, Lot KKJ0617121 for the stemness marker nanog - C03: Lamin B1, antibody staining with Abcam, ab16048, Lot GR3244890-2 for the nuclear envelope marker Lamin B1 This dataset contains 10 Z levels for 4 field of views for those 3 channels, as well as (manually adjusted) metadata files from the Yokogawa CV7000. The data was acquired in the Pelkmans lab in August 2020. The images have been converted from TIFF into PNG (lossless).
DOI: 10.5281/zenodo.7057075
title: hiPSC 3D immunofluorescence images, test data set 2x2, 10Z

description: Example dataset of human induced pluripotent stem cells, imaged at 40x magnification with a Yokogawa CV7000. This is a small subset of a larger experiment intended as a test dataset for Fractal: https://github.com/fractal-analytics-platform/fractal 3 Channels were imaged: - C01: DAPI, nuclear stain - C02: nanog, antibody staining with Bio-Techne AG, AF1997-SP, Lot KKJ0617121 for the stemness marker nanog - C03: Lamin B1, antibody staining with Abcam, ab16048, Lot GR3244890-2 for the nuclear envelope marker Lamin B1 This dataset contains 10 Z levels for 4 field of views for those 3 channels, as well as (manually adjusted) metadata files from the Yokogawa CV7000. The data was acquired in the Pelkmans lab in August 2020. The images have been converted from TIFF into PNG (lossless).
DOI: 10.18112/openneuro.ds003775.v1.2.0
title: SRM Resting-state EEG
DOI: 10.17632/2pdwp5xnmv.1
title: Gap Detection

description: Experimental data for the paper "Mind the gap: decoding decreases in tonic firing in populations of spiking neurons" by Durian et al (2022).
DOI: 10.5281/zenodo.5061257
title: GVI: Sample data for computing VGVI. Vancouver, BC and Manchester.

description: This is a supplement for the GVI: Greenness Visibility Index R package. Description: This dataset contains raster (TIFF) data for computing the VGVI for the City of Vancouver and Manchester. <strong>Greater Manchester:</strong> Digital Terrain Model (DTM): Spatial Resolution: 5m Source: LIDAR Composite DTM 2017 - 50cm Licence: Open Government Licence (OGL) File name: GreaterManchester_DTM_5m.tif<br> Digital Surface Model (DSM): Spatial Resolution: 5m Source: LIDAR Composite DSM 2017 - 50cm Licence: Open Government Licence (OGL) File name: GreaterManchester_DSM_5m.tif<br> Greenspace Mask: Spatial resolution: 5m Source: Dennis et al. 2017 Licence: Open Government Licence (OGL) File name: GreaterManchester_GreenSpace_5m.tif <strong>Vancouver:</strong> Digital Terrain Model (DTM): Spatial Resolution: 1m Source: Canada’s Open Government Portal Licence: Open Government Licence - Canada File name: Vancouver_DTM_1m.tif<br> Digital Surface Model (DSM): Spatial Resolution: 1m Source: Canada’s Open Government Portal Licence: Open Government Licence - Canada File name: Vancouver_DSM_1m.tif<br> Greenspace Mask: Spatial Resolution: 2m Source: Land Cover Classification 2014 - 2m LiDAR Licence: Metro Vancouver File name: Vancouver_GreenSpace_2m.tif<br> Landuse Spatial Resolution: 2m Source: Land Cover Classification 2014 - 2m LiDAR Licence: Metro Vancouver File name: Vancouver_LULC_2m.tif
DOI: 10.17632/9k69zkmg3z.1
title: Central desks research

description: Results documents extracted from QNvivo
DOI: 10.17632/hhncshpt33.1
title: RNA Seq of Four Spirodela Tissues

description: RNASeq data for Ware et al., 2022
DOI: 10.17632/3pv3v68t9s.1
title: Gradient boosting algorithm

description: Gradient boosting algorithm
DOI: 10.17632/tnbzgfwhcs.1
title: Non-human Primates' Kinematic and Neuronal Recordings throughout a Reach-Grasp-Manipulate Task 

description: This data was collected from a behavioral task where two male rhesus non-human primates (Macaca mulatta, monkey X and monkey Y) were trained to
sit in a primate chair and visually-cued to reach towards, grasp, and manipulate one of four objects, i.e., a sphere (sphere), a perpendicularly mounted cylinder (mallet), a push-button (button), or a peripheral coaxial cylinder (cylinder). All studies were approved by the University of Rochester Institutional Animal Care and Use Committee. A description of the experimental paradigm and recording devices can be found in "Description_Experiment.pdf". 

Data collected in this repository was gathered from two experimental sessions with monkey X (session X0918 and session X1002) and two experimental session with monkey Y (session Y0210 and session Y0304). For each subject and recording session, data is stored in the MATLAB file "data_*****.mat", where "*****" indicates the specific combination of subject and session, i.e., it is X0918, X1002, Y0210, or Y0304). In each *.mat file, three MATLAB struct objects are stored: "kinematics", "neurons", and"lfp". lfp is available for sessions with monkey X only. A description of these struct objects is reported in "Description_Dataset.pdf".

This experiment was designed by Marc H. Schieber and collected by Adam G. Davidson, Andrew J. Law, and Marc. H. Schieber. 
M. Mollazadeh, V. Aggarwal, A. G. Davidson, A. J. Law, N. V. Thakor, and M. H. Schieber, "Spatiotemporal variation of multiple neurophysiological signals in the primary motor cortex during dexterous reach-to-grasp movements," J Neurosci, vol. 31, pp. 15531-15543, October 2011. DOI: https://doi.org/10.1523/JNEUROSCI.2999-11.2011
DOI: 10.17632/25r42hx4xy.1
title: Data set for a computational studies on the degradation of the endocrine disruptor acetochlor

description: The data set contains the results obtained from a computational study involving  simulations of PES SCAN, QTAIM and IQA to analyse the mechanisms of degradation of the endocrine disruptor acetochlor. 

The dataset is divided into folders, and each directory contains the data referring to the methodologies used in the work.
DOI: 10.34943/ac118b10-0718-401d-ac27-ca7e7791f458
title: Conception Bay Integrated CTD pH O2 Instrument Deployed 2022-08-21

description: The Sea-Bird Deep SeapHOx V2 SN 721-2038 was deployed on 2022-08-21 at Conception Bay. Conception Bay is located west of the city St. John's, Newfoundland. This device is a Integrated CTD pH O2 Instrument. The integrated CTD pH O2 Instrument allows for pH measurements to be combined with critical oceanographic and biological measurements of temperature, salinity, and oxygen. It was deployed on a fixed platform. Data from this deployment were archived and made available through Ocean Networks Canada's Oceans 3.0 digital infrastructure, with quality assurance and derived data products following established practices.
DOI: 10.17632/bdckjt2sjc.1
title: Armalcolite breakdown in a brecciated lunar meteorite

description: The file contains figures showing the SEM and TEM observations results of armalcolite breakdown micro-textures, schematic phase diagram of the Mg-Fe-Ti-O system, EPMA compositions of normal and pseudomorph armalcolite, and  STEM-EDS  compositions of ilmenite in two FIB sections.
DOI: 10.17632/g65rf7psn5.1
title: Itch-Free State in Patients With Atopic Dermatitis Treated With Ruxolitinib Cream: Pooled Analysis From Two Randomized Phase 3 Studies

description: Supplementary Appendix for an article published in the Journal of the American Academy of Dermatology
DOI: 10.17632/hg89dvf9mn.1
title: Correlation of gut microbiota and metabolic functions with the antibody response to the BBIBP-CorV vaccine

description: We investigate whether the human gut microbiota and metabolic function correlate with the inactivated SARS-CoV-2 vaccine (BBIBP-CorV, CNBG) response. A total of 207 participants who receive the BBIBP-CorV vaccine at Days 0 and 28 are enrolled. The gut microbiome and related metabolic functions are investigated using metagenomic sequencing and metabolomic assays. We find that BBIBP-CorV vaccination is accompanied by altered gut microbiome composition and functional pathways, and the gut microbiome and its functional profiles correlate with the vaccine response. Targeted metabolomic analysis show that the fecal and serum levels of short-chain fatty acids (SCFAs) are much higher in the high antibody response group compared to the low response group after vaccination, and several SCFAs display a positive correlation with the ACE2-RBD inhibiting antibody response. Our study highlights that gut microbiome and its function is associated with the BBIBP-CorV vaccine response, providing evidence for further exploration of microbiome modulation to improve COVID-19 vaccine efficacy. 
All these spreadsheets were created during the metagenomic sequencing analysis, and used for alpha, beta diversity analysis, and correlation analysis, etc.
DOI: 10.17632/94xgmssfxy.1
title: Design, synthesis, and structural-activity relationship analysis of EphB4 antagonist peptide analogs

description: Supporting Information
DOI: 10.17632/nzrfx7cv69.1
title: Appendix C Metadata for the database search keywords (Teacher Education Interventions on Teacher TPACK-A meta-analysis)

description: Search keywords from four databases: Web of Science, Google Scholar, ProQuest and Scopus.
DOI: 10.17632/t8gxdbgt8p.1
title: Teacher Education Interventions on Teacher TPACK: A Meta Analysis Study

description: The coding manual, coding results, and meta-analysis data for the review article.
DOI: 10.17632/t8gxdbgt8p.2
title: Teacher Education Interventions on Teacher TPACK: A Meta Analysis Study

description: The coding manual, coding results, and meta-analysis data for the review article.
DOI: 10.17632/px98h6xwjf.1
title: Superhydrophobic coating with excellent corrosion resistance and anti-fouling properties were prepared on the surface of low manganese steel by electrodeposition

description: A superhydrophobic coating of yttrium stearate was prepared on the surface of low manganese steel, and the database is the raw data of FTIR, XPS, Tafel, EIS and XRD of the coating.
DOI: 10.17632/shmjgwhvsd.1
title: A study of Correlation of gut microbiota and metabolic functions with the antibody response to the BBIBP-CorV vaccine. Tang et al.

description: We investigate whether the human gut microbiota and metabolic function correlate with the inactivated SARS-CoV-2 vaccine (BBIBP-CorV, CNBG) response. A total of 207 participants who receive the BBIBP-CorV vaccine at Days 0 and 28 are enrolled. The gut microbiome and related metabolic functions are investigated using metagenomic sequencing and metabolomic assays. We find that BBIBP-CorV vaccination is accompanied by altered gut microbiome composition and functional pathways, and the gut microbiome and its functional profiles correlate with the vaccine response. Targeted metabolomic analysis show that the fecal and serum levels of short-chain fatty acids (SCFAs) are much higher in the high antibody response group compared to the low response group after vaccination, and several SCFAs display a positive correlation with the ACE2-RBD inhibiting antibody response. Our study highlights that gut microbiome and its function is associated with the BBIBP-CorV vaccine response, providing evidence for further exploration of microbiome modulation to improve COVID-19 vaccine efficacy. 
All these spreadsheets were created during the metagenomic sequencing analysis, and used for alpha, beta diversity analysis, and correlation analysis, etc.
DOI: 10.17632/shmjgwhvsd.2
title: A study of Correlation of gut microbiota and metabolic functions with the antibody response to the BBIBP-CorV vaccine. Tang et al.

description: We investigate whether the human gut microbiota and metabolic function correlate with the inactivated SARS-CoV-2 vaccine (BBIBP-CorV, CNBG) response. A total of 207 participants who receive the BBIBP-CorV vaccine at Days 0 and 28 are enrolled. The gut microbiome and related metabolic functions are investigated using metagenomic sequencing and metabolomic assays. We find that BBIBP-CorV vaccination is accompanied by altered gut microbiome composition and functional pathways, and the gut microbiome and its functional profiles correlate with the vaccine response. Targeted metabolomic analysis show that the fecal and serum levels of short-chain fatty acids (SCFAs) are much higher in the high antibody response group compared to the low response group after vaccination, and several SCFAs display a positive correlation with the ACE2-RBD inhibiting antibody response. Our study highlights that gut microbiome and its function is associated with the BBIBP-CorV vaccine response, providing evidence for further exploration of microbiome modulation to improve COVID-19 vaccine efficacy. 
All these spreadsheets were created during the metagenomic sequencing analysis, and used for alpha, beta diversity analysis, and correlation analysis, etc.
DOI: 10.17632/shmjgwhvsd.3
title: A study of Correlation of gut microbiota and metabolic functions with the antibody response to the BBIBP-CorV vaccine. Tang et al.

description: We investigate whether the human gut microbiota and metabolic function correlate with the inactivated SARS-CoV-2 vaccine (BBIBP-CorV, CNBG) response. A total of 207 participants who receive the BBIBP-CorV vaccine at Days 0 and 28 are enrolled. The gut microbiome and related metabolic functions are investigated using metagenomic sequencing and metabolomic assays. We find that BBIBP-CorV vaccination is accompanied by altered gut microbiome composition and functional pathways, and the gut microbiome and its functional profiles correlate with the vaccine response. Targeted metabolomic analysis show that the fecal and serum levels of short-chain fatty acids (SCFAs) are much higher in the high antibody response group compared to the low response group after vaccination, and several SCFAs display a positive correlation with the ACE2-RBD inhibiting antibody response. Our study highlights that gut microbiome and its function is associated with the BBIBP-CorV vaccine response, providing evidence for further exploration of microbiome modulation to improve COVID-19 vaccine efficacy. 
All these spreadsheets were created during the metagenomic sequencing analysis, and used for alpha, beta diversity analysis, and correlation analysis, etc.
DOI: 10.17632/t8gxdbgt8p.3
title: Appendix B Metadata for the search paper code table(Teacher Education Interventions on Teacher TPACK: A Meta Analysis)

description: The coding manual, coding results, and meta-analysis data for the review article.
DOI: 10.17632/dwwt7bcxp9.1
title: VC-Backed Firms

description: This data was collected from the VC-backed firms during my Ph.D.
DOI: 10.17632/dwwt7bcxp9.2
title: VC-Backed Firms

description: This data was collected from the VC-backed firms during my Ph.D.
DOI: 10.17632/dy2ps7zttf.1
title: Helicobacter pylori promotes gastric fibroblast proliferation and migration by expulsing exosomal miR-124-3p

description: raw blots
DOI: 10.17632/g8hvbnnrc6.1
title: Vol. 15(3), 2022

description: To visit webpage containing full articles (in Persian), please visit: https://escs.birjand.ac.ir/issue_294_319.html?lang=en
DOI: 10.17632/2j56x4vr83.1
title: Biofilm responsive proteins of Candida albicans

description: Present study represents the peptide mass data of proteins expressed during biofilm form growth of Candida albicans ATCC10231. 
Extraction: Protein extraction from both biofilm and control were done using alkaline lysis method where cells were lysed under high alkaline condition of sodium hydroxide containing Protease inhibitor cocktail (PIC). This solution is neutralized by of 4 M acetic acid. Precipitation was done with Methanol: chloroform: water (4:1:3) in chilled condition. Then pellet was subjected to trypsin digestion and samples were prepared by reduction of proteins followed by alkylation with iodoacetamide and digestion into peptides, which were purified by means of Zip tip C18 chromatography (Millipore; Billerica, MA). Separation: LC/MS of protein samples were done using Triple-TOF 5600 (AB Sciex; Concord, Canada) mass spectrometry coupled with Micro LC 200 (Eksigent; Dublin, CA) in high-sensitivity mode. Acquisition: Data is acquired on Micro LC 200 coupled to a Triple TOF 5600 MS (AB SCIEX) by SWATH in triplicate for both control and test sample. Informatics: Acquired data was analyzed with Marker View version 1.2.1 software after checking SWATH files for overlapping peaks with peak view version 2 software. Instruments: AB SCIEX Triple TOF 5600.
DOI: 10.17632/2j56x4vr83.2
title: Biofilm responsive proteins of Candida albicans

description: Present study represents the peptide mass data of proteins expressed during biofilm form growth of Candida albicans ATCC10231. 
Growth: Candida albicans standard strain ATCC 10231 was collected from microbial test culture collection (MTCC), Chandigarh and gowned on YPD medium (1% yeast extract, 2% peptone and 2% dextrose) at 30ºC used for routine growth and maintenance of the Candida albicans strain. Biofilm were formed in liquid RPMI-1640 medium on Micro-titer plate. 
Treatment: Overnight grown cells were harvested and washed four times with sterile distilled water. Then, pellet was re-suspended in phosphate buffer saline and incubated at 37ºC for 90 min for adhesion. Phosphate buffer saline were used to wash out non adhered cell. After 3 times of wash, adhered cells were incubated in liquid RPMI-1640 medium at 37℃ for 24 hrs. Cells were collected after washing the RPMI-1640 medium in sterile phosphate buffer saline.
Extraction: Protein extraction from both biofilm and control were done using alkaline lysis method where cells were lysed under high alkaline condition of sodium hydroxide containing Protease inhibitor cocktail (PIC). This solution is neutralized by of 4 M acetic acid. Precipitation was done with Methanol: chloroform: water (4:1:3) in chilled condition. Then pellet was subjected to trypsin digestion and samples were prepared by reduction of proteins followed by alkylation with iodoacetamide and digestion into peptides, which were purified by means of Zip tip C18 chromatography (Millipore; Billerica, MA). 
Digestion: Protein digestion were done in AmBic at 370C is used for protein digestion for 18Hr with 600rpm. Digested protein samples were aspirated several times in equilibrated Zip-tip C18 Resin spin columns (Millipore; Billerica, MA), resin bound peptides were separated by washing thrice with 0.1% TFA and eluted twice with 50 % CAN. Finally peptides were eluted in 100% ACN and samples were concentrated using Eppendorf speed vac (Model 5301). Samples were reconstituted in 3% ACN and 0.1% Formic acid (1µg / µl) by continuous vortexing and finally injected in to LC MS column.
Separation: LC/MS of protein samples were done using Triple-TOF 5600 (AB Sciex; Concord, Canada) mass spectrometry coupled with Micro LC 200 (Eksigent; Dublin, CA) in high-sensitivity mode. Peptides were injected into a Eskigent C18- RP HPLC column (100 × 0.3 mm, 3 µm, 120Å) and then separated using a 90 min gradient of 3 % to 35 % mobile phase (Mobile phase A: 100 % water with 0.1 % (v/v) formic acid, Mobile Phase B: 100 % acetonitrile with 0.1 % (v/v) formic acid) at a flow rate of 8 µL/min.
Acquisition: Data is acquired on Micro LC 200 coupled to a Triple TOF 5600 MS (AB SCIEX) by SWATH in triplicate for both control and test sample. 
Informatics: Acquired data was analyzed with Marker View version 1.2.1 software after checking SWATH files for overlapping peaks with peak view version 2 software. 
Instruments: AB SCIEX Triple TOF 5600.
DOI: 10.17632/8zxtjh8fjs.1
title: Lineage-specific protein repeat expansions and contractions reveal malleable regions of immune genes

description: Functional diversification, a higher evolutionary rate, and intense positive selection help a limited number of immune genes interact with many pathogens. Repeats in protein-coding regions are a well-known source of functional diversification, adaptive variation, and evolutionary novelty in a short time. Repeats play a crucial role in biochemical functions like functional diversification of transcription regulation, protein kinases, cell adhesion, signaling pathways, morphogenesis, DNA repair, recombination, and RNA processing. Repeat length variation can change the associated protein's interaction, efficacy, and overall protein network. Repeats have an intrinsic unstable nature and can potentially evolve rapidly and expedite the acquisition of complex phenotypic traits and functions. Because of their ability to generate rapid, adaptive variations over short evolutionary distances, repeats are considered "tuning knobs." Repeat length variation in specific genes, like RUNX2 and ALX4, is associated with morphological and physiological changes across vertebrates. Here we study repeat length variation as a potent source of species-specific immune diversification across several clades of tetrapods. Moreover, we provide a clade-wise comprehensive list of immune genes with repeat types for future studies of morphological/evolutionary changes within species groups. We observe significant repeat length variation of FASLG and C1QC in Rodentia and Primates' contrasting species groups, respectively.
DOI: 10.17632/drtyc2gbv8.1
title: Dissertation

description: Dataset after treatment used for MSc dissertation, with 74 listed energy firms in China covering the years of 2018-2021. The dataset includes 40 indicators of both financial ratio indicators and energy firms operations in renewables, such as renewable energy installations, power generated and their ratio to total capacity or total power generation.
DOI: 10.17632/hd962mb4rh.1
title: An adenovirus based recombinant herpes simplex virus 2 (HSV-2) therapeutic vaccine is highly protective against acute and recurrent HSV-2 disease in a guinea pig model

description: Recombinant adenovirus-based vaccines including rAd-gD2ΔUL25, rAd-ΔUL25, and rAd-gD2 immunized guinea pig model. Humoral and cellular immune responses were described.
DOI: 10.6084/m9.figshare.20263995
title: review data

description: Data from CNS and ENS to demonstrate the 3-step mechanism of fate biasing
DOI: 10.6084/m9.figshare.20263995.v1
title: review data

description: Data from CNS and ENS to demonstrate the 3-step mechanism of fate biasing
DOI: 10.17632/fr7n8bcybc.2
title: Dataset1

description: The use of the Electrical resistivity tomography (ERT) technique, with the support of geochemical analyses, contributes to establishing a reliable methodology and provides information to delimit the affected subsurface area by pig slurry.
Data of ERT and soil were taken in September 2020, using a SuperSting R8 resistivity meter using the dipole-dipole array consisting of a total of twenty-eight electrodes. 
Soil samples are taken from the core- samples in three selected slurry ponds located in Fuente Álamo municipality, Murcia region (SE Spain).
Data of  ERT values and physical-chemical analysis data were contrasted, by the statistical analysis run by SPSS Statistics v.23 software (IBM, Neconductivity York, NY, USA) to establish the non-parametric Spearman correlation
DOI: 10.17632/fr7n8bcybc.3
title: Dataset1

description: The use of the Electrical resistivity tomography (ERT) technique, with the support of geochemical analyses, contributes to establishing a reliable methodology and provides information to delimit the affected subsurface area by pig slurry.
Data of ERT and soil were taken in September 2020, using a SuperSting R8 resistivity meter using the dipole-dipole array consisting of a total of twenty-eight electrodes. 
Soil samples are taken from the core- samples in three selected slurry ponds located in Fuente Álamo municipality, Murcia region (SE Spain).
Data of  ERT values and physical-chemical analysis data were contrasted, by the statistical analysis run by SPSS Statistics v.23 software (IBM, Neconductivity York, NY, USA) to establish the non-parametric Spearman correlation