cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19106990.v1
title: Sample information and NMR assignments

description: Assignment and sample information. Experiment name and number indicates the groupings of samples. Multiple databases were used for the assignment of metabolites; Chenomx NMR suite software (Chenomx Inc, Canada), Human Metabolome Database (HMDB) and Biological Magnetic Resonance Data Bank (BMRB).
DOI: 10.6084/m9.figshare.19404182
title: Bruker NMR file for NMR metabolomics

description: NMR data from paper NMR metabolomics of symbioses between bacterial vaginosis associated bacteria doi: https://doi.org/10.1101/2021.11.17.468714<br>For preparation of samples to be used in metabolomics bacterial cultures were pelleted by centrifuge at 5000 rpm at 4<sup>o</sup>C. Supernatant was filtered with 0.22 µm membrane to remove any bacterial cells and large debris and were stored at -80<sup>o</sup>C until use. To aid suppression of the water signal and deuterium lock and act as an internal reference, 60 µl of D<sub>2</sub>O + 3-(trimethylsilyl)propionic-2,2,3,3-d4 acid sodium salt (TSP-d4) was added to 570 µl of filtered supernatant. The pH of all samples was adjusted using NaOH to within 0.2 pH units of the BHI media control. <sup>1</sup>H NMR spectra were recorded on Bruker 600 MHz Bruker Avance III NMR spectrometer (Bruker BioSpin, Coventry, United Kingdom) equipped with a 5 mm <sup>1</sup>H, <sup>13</sup>C, <sup>15</sup>N TCI Prodigy Probe and a cooled sample changer with all samples kept at 4 °C. The 1D spectra were acquired under automation at a temperature of 298 K using Carr-Purcell-Meiboom-Gill presaturation (CMPG) pulse sequence (cpmgrp1). The parameters of spectra acquisition are 32 transients, a spectral width of 20.83 ppm and 65,536 datapoints. For assignment of metabolite peaks additional spectra, Total correlation spectroscopy (TOCSY), <sup>1</sup>H-<sup>13</sup>C heteronuclear single quantum correlation spectroscopy and J-resolved spectroscopy (JRES), were acquired from a pooled sample containing a small volume of all samples. Resonance positions are quoted in ppm with respect to the methyl peak of TSP-d4 at 0.0 ppm.<br>
DOI: 10.6084/m9.figshare.19404182.v1
title: Bruker NMR file for NMR metabolomics

description: NMR data from paper NMR metabolomics of symbioses between bacterial vaginosis associated bacteria doi: https://doi.org/10.1101/2021.11.17.468714<br>For preparation of samples to be used in metabolomics bacterial cultures were pelleted by centrifuge at 5000 rpm at 4<sup>o</sup>C. Supernatant was filtered with 0.22 µm membrane to remove any bacterial cells and large debris and were stored at -80<sup>o</sup>C until use. To aid suppression of the water signal and deuterium lock and act as an internal reference, 60 µl of D<sub>2</sub>O + 3-(trimethylsilyl)propionic-2,2,3,3-d4 acid sodium salt (TSP-d4) was added to 570 µl of filtered supernatant. The pH of all samples was adjusted using NaOH to within 0.2 pH units of the BHI media control. <sup>1</sup>H NMR spectra were recorded on Bruker 600 MHz Bruker Avance III NMR spectrometer (Bruker BioSpin, Coventry, United Kingdom) equipped with a 5 mm <sup>1</sup>H, <sup>13</sup>C, <sup>15</sup>N TCI Prodigy Probe and a cooled sample changer with all samples kept at 4 °C. The 1D spectra were acquired under automation at a temperature of 298 K using Carr-Purcell-Meiboom-Gill presaturation (CMPG) pulse sequence (cpmgrp1). The parameters of spectra acquisition are 32 transients, a spectral width of 20.83 ppm and 65,536 datapoints. For assignment of metabolite peaks additional spectra, Total correlation spectroscopy (TOCSY), <sup>1</sup>H-<sup>13</sup>C heteronuclear single quantum correlation spectroscopy and J-resolved spectroscopy (JRES), were acquired from a pooled sample containing a small volume of all samples. Resonance positions are quoted in ppm with respect to the methyl peak of TSP-d4 at 0.0 ppm.<br>
DOI: 10.6084/m9.figshare.19134704
title: CO1 sequences used to compare the performance of five taxonomic assignment programs

description: A test of the accuracy of taxonomic assignments of some <i>CO1</i> sequences was built into the technical validation process of MIDORI2. We removed 186 complete mitochondrial <i>CO1 </i>gene sequences, one from each of the 186 taxonomic classes represented in MIDORI2, from the LONGEST_GB242 <i>CO1</i> database to use as queries.Accuracy tests were conducted for three regions of the query sequences: 1) the complete mitochondrial <i>CO1</i>, 2) the ~658 bp <i>COI </i>“barcode region” (Folmer et al., 1994), and 3) a ~313 bp fragment (Leray et al., 2013) within the barcode region.<br>This file contains the 186 <i>CO1</i> sequences that were used as query to compare the performance of five taxonomic assignment programs (Qiime2, Mothur, RDP classifier, Sintax and BLAST+)
DOI: 10.6084/m9.figshare.19134722
title: MIDORI2 database of CO1 sequences formatted to compare the performance of five taxonomic assignment programs

description: A test of the accuracy of taxonomic assignments of some <i>CO1</i> sequences was built into the technical validation process of MIDORI2. We removed 186 complete mitochondrial <i>CO1 </i>gene sequences, one from each of the 186 taxonomic classes represented in MIDORI2, from the LONGEST_GB242 <i>CO1</i> database to use as queries.Accuracy tests were conducted for three regions of the query sequences: 1) the complete mitochondrial <i>CO1</i>, 2) the ~658 bp <i>COI </i>“barcode region” (Folmer et al., 1994), and 3) a ~313 bp fragment (Leray et al., 2013) within the barcode region.<br>The files contains <i>CO1</i> sequences of the MIDORI2 database. The 186 mitochondrial <i>CO1 </i>gene sequences, that were used as query to compare the performance of five taxonomic assignment programs (Qiime2, Mothur, RDP classifier, Sintax and BLAST+), were removed from these files.
DOI: 10.18462/iir.cryo.2021.0047
title: A removable temperature sensors holsder for cryogenic rayleigh-bénard convection cell.
DOI: 10.6084/m9.figshare.19411718
title: Supplemental Material

description: Supplemental Material for 2022 mBio CRKP Publication
DOI: 10.5281/zenodo.6381567
title: Linear rheology of liquid foam - data from "Delayed elastic contributions to the viscoelastic response of foams"

description: Linear rheological data of Gillette shaving cream "normal skin" made by Gillette UK LTD, acquired at the Department of Physics, University of Fribourg, Switzerland, between 2019 and 2022. Dataset contains elastic modulus, creep-recovery, stress relaxation, and frequency sweep experimental data, together with model data, as described in "Delayed elastic contributions to the viscoelastic response of foams", The Journal of Chemical Physics, 2022, published in the special issue <em>Slow Dynamics</em> [DOI: 10.1063/5.0085773].
DOI: 10.5281/zenodo.6381566
title: Linear rheology of liquid foam - data from "Delayed elastic contributions to the viscoelastic response of foams"

description: Linear rheological data of Gillette shaving cream "normal skin" made by Gillette UK LTD, acquired at the Department of Physics, University of Fribourg, Switzerland, between 2019 and 2022. Dataset contains elastic modulus, creep-recovery, stress relaxation, and frequency sweep experimental data, together with model data, as described in "Delayed elastic contributions to the viscoelastic response of foams", The Journal of Chemical Physics, 2022, published in the special issue <em>Slow Dynamics</em> [DOI: 10.1063/5.0085773].
DOI: 10.6084/m9.figshare.19319885
title: Yap live imaging

description: E8.0 Yap live reporter embryo was captured with 4×90 degrees of rotation. E8.5 and E9.5 Yap live reporter embryos each was captured with 4 tiles scanning (5% overlap).
DOI: 10.25606/surf.96330071afbd9401
title: NYC Taxi Parquet data sets

description: New York City (NYC) taxi trip data sets. Stored in Parquet format. Website: https://www1.nyc.gov/site/tlc/about/tlc-trip-record-data.page Related publication: Hannes Mühleisen, Mark Raasveldt: Querying Parquet with Precision using DuckDB. https://duckdb.org/2021/06/25/querying-parquet.html
DOI: 10.25606/surf.e0b1d17b0c841da3
title: Labelled Subgraph Query Benchmark graphs

description: Graphs for the Labelled Subgraph Query Benchmark (LSQB), a microbenchmark for graph pattern matching. The graphs were generated by the LDBC Social Network Benchmark's Datagen (Spark variant) and were then simplifeid by omitting all attributes. The available scale factors are: SF0.1, SF0.3, ..., SF1000. Stored in zstd-compressed CSV files. - lsqb-merged: data sets represented as CSVs with N:1 foreign keys (e.g. Person_isLocatedIn_City) merged into their respective entities (e.g. Person.islocatedin_city). - lsqb-projected: data sets represented as CSVs with N:1 foreign keys (e.g. Person_isLocatedIn_City) projected to a separate CSV file. Website: https://github.com/ldbc/lsqb Related publication: Amine Mhedhbi, Matteo Lissandrini, Laurens Kuiper, Jack Waudby, Gábor Szárnyas: LSQB: a large-scale subgraph query benchmark. GRADES-NDA@SIGMOD 2021: 8:1-8:11. https://dl.acm.org/doi/10.1145/3461837.3464516
DOI: 10.25606/surf.04ef48d962339fa4
title: TPC-H lineitem SF100 Parquet data set

description: The lineitem table of the TPC-H benchmark's SF100 data set. Stored in Parquet files. Website: https://www.tpc.org/tpch/ Related publications: - TPC Benchmark H, Standard Specification Revision 2.17.2, 2017. https://www.tpc.org/tpc_documents_current_versions/pdf/tpc-h_v2.17.2.pdf - Meikel Poess: TPC-H. Encyclopedia of Big Data Technologies, 2019. https://link.springer.com/referenceworkentry/10.1007/978-3-319-63962-8_126-1
DOI: 10.25606/surf.7506be02023d2582
title: SIGMOD 2014 Programming Contest graphs

description: Data sets of the SIGMOD 2014 Programming Contest generated by the LDBC Social Network Benchmark's data generator. Stored in zstd-compressed CSV files. Data sets originally hosted on the competition's website: - o1k.tar.zst: 1k person nodes. - o10k.tar.zst: 10k person nodes. Data sets produced with Datagen (https://github.com/ldbc/ldbc_snb_datagen_hadoop/releases/tag/sigmod2014contest) after the competition: - p1k.tar.zst: 1k person nodes. - p10k.tar.zst: 10k person nodes. - p100k.tar.zst: 100k person nodes. - p1000k.tar.zst: 1000k (1M) person nodes. Website: https://web.archive.org/web/20210118224923/http://www.cs.albany.edu/~sigmod14contest/ Related publication: Márton Elekes, János Benjamin Antal, Gábor Szárnyas: An analysis of the SIGMOD 2014 Programming Contest: Complex queries on the LDBC social network graph. CoRR abs/2010.12243 (2020). https://arxiv.org/abs/2010.12243
DOI: 10.18462/iir.cryo.2021.0043
title: Increased qualitative and quantitative requirements put on haematopoietic cell establishments as the result of the COVID-19 pandemic – own experience.
DOI: 10.5281/zenodo.6382657
title: Dataset - Nasal microbiome disruption and recovery after mupirocin treatment in Staphylococcus aureus carriers and noncarriers

description: <strong>Background. </strong>Nasal decolonization procedures against the opportunistic pathogen <em>Staphylococcus aureus</em> rely on topical antimicrobial drug usage, whose impact on the nasal microbiota is poorly understood. We examined this impact in healthy <em>S. aureus </em>carriers and noncarriers. <strong>Methods. </strong>This is a prospective interventional cohort study of 8 <em>S. aureus </em>carriers and 8 noncarriers treated with nasal mupirocin and chlorhexidine bath. Sequential nasal swabs were taken over 6 months. <em>S. aureus</em> was detected by quantitative culture and genotyped using <em>spa</em> typing. RNA-based 16S species-level metabarcoding was used to assess the living microbial diversity. <strong>Results. </strong>The species <em>Dolosigranulum pigrum, Moraxella nonliquefaciens </em>and<em> Corynebacterium propinquum </em>correlated negatively with <em>S. aureus</em> carriage. Mupirocin treatment effectively eliminated <em>S. aureus, D. pigrum </em>and<em> M. nonliquefaciens, </em>but not corynebacteria. <em>S. aureus</em> recolonization in carriers occurred more rapidly than recolonization by the dominant species in noncarriers (median 3 vs. 6 months, respectively). Recolonizing <em>S. aureus</em> isolates had the same <em>spa</em> type as the initial isolate. <strong>Conclusions. </strong>Mupirocin-chlorhexidine treatment had a long-lasting impact on the nasal microbiota. <em>S. aureus</em> recolonization predated microbiota recovery, emphasizing the strong adaptation of this pathogen to the nasal niche and the transient efficacy of the decolonization procedure.
DOI: 10.5281/zenodo.6382656
title: Dataset - Nasal microbiome disruption and recovery after mupirocin treatment in Staphylococcus aureus carriers and noncarriers

description: <strong>Background. </strong>Nasal decolonization procedures against the opportunistic pathogen <em>Staphylococcus aureus</em> rely on topical antimicrobial drug usage, whose impact on the nasal microbiota is poorly understood. We examined this impact in healthy <em>S. aureus </em>carriers and noncarriers. <strong>Methods. </strong>This is a prospective interventional cohort study of 8 <em>S. aureus </em>carriers and 8 noncarriers treated with nasal mupirocin and chlorhexidine bath. Sequential nasal swabs were taken over 6 months. <em>S. aureus</em> was detected by quantitative culture and genotyped using <em>spa</em> typing. RNA-based 16S species-level metabarcoding was used to assess the living microbial diversity. <strong>Results. </strong>The species <em>Dolosigranulum pigrum, Moraxella nonliquefaciens </em>and<em> Corynebacterium propinquum </em>correlated negatively with <em>S. aureus</em> carriage. Mupirocin treatment effectively eliminated <em>S. aureus, D. pigrum </em>and<em> M. nonliquefaciens, </em>but not corynebacteria. <em>S. aureus</em> recolonization in carriers occurred more rapidly than recolonization by the dominant species in noncarriers (median 3 vs. 6 months, respectively). Recolonizing <em>S. aureus</em> isolates had the same <em>spa</em> type as the initial isolate. <strong>Conclusions. </strong>Mupirocin-chlorhexidine treatment had a long-lasting impact on the nasal microbiota. <em>S. aureus</em> recolonization predated microbiota recovery, emphasizing the strong adaptation of this pathogen to the nasal niche and the transient efficacy of the decolonization procedure.
DOI: 10.25606/surf.e8e60a7e282917f5
title: LDBC Graphalytics graphs

description: Data sets for the LDBC Graphalytics benchmark. Stored in zstd-compressed CSV and Matrix Market files. - graphalytics-graph-data-sets: The Graphalytics graphs represented as vertex/edge files and the expected results of the benchmark's algorithms (BFS, CDLP, LCC, PR, SSSP, WCC). - graphalytics-sparse-matrices-matrix-market: The Graphalytics graphs represented as sparse matrices, encoded in the Matrix Market format. For weighted graphs, two variants are available: the original weighted graph (fp64) and an unweighted variant (bool). Website: https://ldbcouncil.org/benchmarks/graphalytics/ Related publication: Alexandru Iosup, Ahmed Musaafir, Alexandru Uta, Arnau Prat-Pérez, Gábor Szárnyas, Hassan Chafi, Ilie Gabriel Tanase, Lifeng Nai, Michael J. Anderson, Mihai Capota, Narayanan Sundaram, Peter A. Boncz, Siegfried Depner, Stijn Heldens, Thomas Manhardt, Tim Hegeman, Wing Lung Ngai, Yinglong Xia: The LDBC Graphalytics Benchmark. CoRR abs/2011.15028 (2020). https://arxiv.org/abs/2011.15028
DOI: 10.5281/zenodo.6382641
title: Data package for Cement with bacterial nanocellulose cured at reservoir temperature: Mechanical performance in the context of CO2 geological storage

description: Data from experimental results and numerical modeling. The dataset is deposited in a .zip file or .xls(.xlsx) file format. Publication: Juan Cruz Barría, Diego Manzanal, Patricia Cerrutti, Jean-Michel Pereira,<br> Cement with bacterial nanocellulose cured at reservoir temperature: Mechanical performance in the context of CO2 geological storage,<br> Geomechanics for Energy and the Environment,<br> 2021,<br> 100267,<br> ISSN 2352-3808,<br> https://doi.org/10.1016/j.gete.2021.100267.<br> (https://www.sciencedirect.com/science/article/pii/S2352380821000356)<br> Keywords: CO2 geological storage; Cement paste; Bacterial nanocellulose; Reservoir temperature; Chemo-hydro-mechanical couplings
DOI: 10.5281/zenodo.6382640
title: Data package for Cement with bacterial nanocellulose cured at reservoir temperature: Mechanical performance in the context of CO2 geological storage

description: Data from experimental results and numerical modeling. The dataset is deposited in a .zip file or .xls(.xlsx) file format. Publication: Juan Cruz Barría, Diego Manzanal, Patricia Cerrutti, Jean-Michel Pereira,<br> Cement with bacterial nanocellulose cured at reservoir temperature: Mechanical performance in the context of CO2 geological storage,<br> Geomechanics for Energy and the Environment,<br> 2021,<br> 100267,<br> ISSN 2352-3808,<br> https://doi.org/10.1016/j.gete.2021.100267.<br> (https://www.sciencedirect.com/science/article/pii/S2352380821000356)<br> Keywords: CO2 geological storage; Cement paste; Bacterial nanocellulose; Reservoir temperature; Chemo-hydro-mechanical couplings
DOI: 10.5281/zenodo.6382373
title: RGB and Thermal Integral Image dataset for Search and Rescue with Airborne Optical Sectioning.

description: The `Integral Images` folder contains labels and augmented AOS integral images (both RGB and Thermal) used for training, validation and testing (`data`). The integral images are computed using the complete data that were recorded during 18 flights at 6 different sites over 10 different days. The dataset mirrors [YOLO (8GB)](https://zenodo.org/record/3894774/files/YOLO.zip?download=1) (`data`) for integral (`SARAOS/AOS`) images, however, now additionally contain corresponding RGB integral images in addition to corresponding thermal integral images.
DOI: 10.5281/zenodo.6382372
title: RGB and Thermal Integral Image dataset for Search and Rescue with Airborne Optical Sectioning.

description: The `Integral Images` folder contains labels and augmented AOS integral images (both RGB and Thermal) used for training, validation and testing (`data`). The integral images are computed using the complete data that were recorded during 18 flights at 6 different sites over 10 different days. The dataset mirrors [YOLO (8GB)](https://zenodo.org/record/3894774/files/YOLO.zip?download=1) (`data`) for integral (`SARAOS/AOS`) images, however, now additionally contain corresponding RGB integral images in addition to corresponding thermal integral images.
DOI: 10.5281/zenodo.6382661
title: A Dataset of Dropout Rates and Other School-Level Variables in Louisiana Public High Schools

description: This massive dataset of school variables covering a duration of five academic years (2014-15 to 2018-19) was originally compiled with the intention of identifying the factors that correlate with high school dropout in Louisiana public high schools, specifically. However, it can be useful to any researchers interested in analyzing school-level data concerning a wide range of variables beyond merely dropout rates. This dataset also contains socioeconomic demographics, financial variables, class size, and much more.
description: This master dataset was compiled by combining dozens of source datasets from Data Center found on the Louisiana Department of Education's website. Link: https://www.louisianabelieves.com/resources/library/data-center
DOI: 10.5281/zenodo.6382660
title: A Dataset of Dropout Rates and Other School-Level Variables in Louisiana Public High Schools

description: This massive dataset of school variables covering a duration of five academic years (2014-15 to 2018-19) was originally compiled with the intention of identifying the factors that correlate with high school dropout in Louisiana public high schools, specifically. However, it can be useful to any researchers interested in analyzing school-level data concerning a wide range of variables beyond merely dropout rates. This dataset also contains socioeconomic demographics, financial variables, class size, and much more.
description: This master dataset was compiled by combining dozens of source datasets from Data Center found on the Louisiana Department of Education's website. Link: https://www.louisianabelieves.com/resources/library/data-center
DOI: 10.3886/e116521v1-113041
title: Replication data for: The Impact of Investment Incentives: Evidence from UK Corporation Tax Returns

description: Using UK corporation tax returns, we provide evidence on the effects of accelerated depreciation allowances on investment, exploiting exogenous changes in the qualifying thresholds for first-year depreciation allowances (FYAs) in 2004. The investment rate of qualifying companies increased by 2.1–2.5 percentage points relative to those that did not qualify. We exploit variation in the timing of tax payments to show that this effect is primarily due to the change in the cost of capital, rather than a relaxation of financial constraints. Discontinuity at notches in the cost of capital at the qualifying thresholds does not affect our results.
DOI: 10.34740/kaggle/dsv/3353144
title: Mahanagar Yatayat Dataset
DOI: 10.6084/m9.figshare.19398776
title: CA3_pyramidal_cells_models_Linaro_et_al_2022

description: Data for the paper "Cell type-specific mechanisms of information transfer in data-driven biophysical models of hippocampal CA3 principal neurons" by D Linaro, MJ Levy and DL Hunt.<br>This zip file contains a folder for each figure of the paper, with a Jupyter notebook that can be used to plot the panels making up the corresponding figure.<br>For any question, please contact danielelinaro@gmail.com.<br>