cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24920151.v1
title: Sequencing data of <i>rv1878</i> insert in the pJET-1878 construct produced during the generation of the complementation of the ∆<i>rv</i>1878 M.tb mutant

description: The rv1878 gene (glnA3) that was cloned into the subcloning vector pJET for the purpose of generating the complementation construct.Many primers were used to sequence the insert, and the last two files are the in silico designed constructs used as template during screening and alignments. The insert could face either direction, so either template could be used depending on the direction of the insert.
DOI: 10.6084/m9.figshare.7120325.v1
title: Additional file 2: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Primers used for qRT-PCR analysis. A Microsoft Excel file containing a single work sheet “qRT-PCR Primer Information”. This table provides the chicken gene symbol, GenBank ID number, 5′-3′ sequence for forward and reverse primers, and amplicon size (bp) for each gene used for qRT-PCR analysis. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7120355
title: Additional file 5: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Canonical and biological pathways identified by IPA in the E18 vs. E20 contrast. The AR-DEGs from the E18 vs. E20 contrast were assigned by IPA to overrepresented canonical and functional pathways. IPA uses Fisher’s Exact Test to determine probability (P ≤ 0.05) of each AR-DEG belonging to a particular canonical pathway or biological function. (XLSX 36 kb)
DOI: 10.5281/zenodo.4772274
title: PLANMAP - Deliverable D4.4 - Mercury/H05-Hokusai quadrangle spectral units map

description: Spectral units map of H05-Hokusai quadrangle on Mercury
description: This work is funded by the European Union's Horizon 2020 research grant agreement No 776276-PLANMAP (https://planmap.eu/) and by the Italian Space Agency (ASI) within the SIMBIO-SYS project (ASI-INAF agreement 2017-47-H.0). This work is based on MESSENGER/MDIS-WAC data publicly available at https://ode.rsl.wustl.edu/mercury/.
DOI: 10.6084/m9.figshare.24920133
title: Sequencing data of <i>rv1877</i> insert in the pJET-1877 construct produced during the generation of the complementation of the ∆<i>rv</i>1877 M.tb mutant

description: The rv1877 gene that was cloned into the subcloning vector pJET for the purpose of generating the complementation construct.Many primers were used to sequence the insert, and the last two files are the in silico designed constructs used as template during screening and alignments. The insert could face either direction, so either template could be used depending on the direction of the insert.
DOI: 10.6084/m9.figshare.24920133.v1
title: Sequencing data of <i>rv1877</i> insert in the pJET-1877 construct produced during the generation of the complementation of the ∆<i>rv</i>1877 M.tb mutant

description: The rv1877 gene that was cloned into the subcloning vector pJET for the purpose of generating the complementation construct.Many primers were used to sequence the insert, and the last two files are the in silico designed constructs used as template during screening and alignments. The insert could face either direction, so either template could be used depending on the direction of the insert.
DOI: 10.6084/m9.figshare.23900004
title: Support set data lists

description: This provides the sample support set data lists used for the experiments in the paper.
DOI: 10.6084/m9.figshare.24920124
title: Sequencing data of the upstream (US) and downstream (DS) in the pJET-0191US, pJET-0191DS constructs produced during the generation of the ∆<i>rv</i>0191 M.tb mutant

description: The last 4 files, are the in silico designed pJET constructs file (that can be used as template for the alignments), with 2 orientations, since inserts could face either direction because fragments were introduced through a blunt end ligation.Since many primers were used for the sequencing, to cover the entire region of interest, there are many data files per region sequenced. However, to recognize the data files, the US files all have, ‘’US’’ in the name, while the DS all have ‘’DS’’ in their name (+ the specific name of the primer used to sequence)
DOI: 10.6084/m9.figshare.24920124.v1
title: Sequencing data of the upstream (US) and downstream (DS) in the pJET-0191US, pJET-0191DS constructs produced during the generation of the ∆<i>rv</i>0191 M.tb mutant

description: The last 4 files, are the in silico designed pJET constructs file (that can be used as template for the alignments), with 2 orientations, since inserts could face either direction because fragments were introduced through a blunt end ligation.Since many primers were used for the sequencing, to cover the entire region of interest, there are many data files per region sequenced. However, to recognize the data files, the US files all have, ‘’US’’ in the name, while the DS all have ‘’DS’’ in their name (+ the specific name of the primer used to sequence)
DOI: 10.6084/m9.figshare.24920109
title: Sequencing data of the upstream (US) and downstream (DS) in the pJET-1878US, pJET-1878DS constructs produced during the generation of the ∆<i>rv</i>1878 (GlnA3) M.tb mutant

description: The last 4 files, are the in silico designed pJET constructs file (that can be used as template for the alignments), with 2 orientations, since inserts could face either direction because fragments were introduced through a blunt end ligation.rv1878 here is named ''A3'' in the filesSince many primers were used for the sequencing, to cover the entire region of interest, there are many data files per region sequenced. However, to recognize the data files, the US files all have, ‘’US’’ in the name, while the DS all have ‘’DS’’ in their name (+ the specific name of the primer used to sequence)
DOI: 10.6084/m9.figshare.24920109.v1
title: Sequencing data of the upstream (US) and downstream (DS) in the pJET-1878US, pJET-1878DS constructs produced during the generation of the ∆<i>rv</i>1878 (GlnA3) M.tb mutant

description: The last 4 files, are the in silico designed pJET constructs file (that can be used as template for the alignments), with 2 orientations, since inserts could face either direction because fragments were introduced through a blunt end ligation.rv1878 here is named ''A3'' in the filesSince many primers were used for the sequencing, to cover the entire region of interest, there are many data files per region sequenced. However, to recognize the data files, the US files all have, ‘’US’’ in the name, while the DS all have ‘’DS’’ in their name (+ the specific name of the primer used to sequence)
DOI: 10.11583/dtu.19316264.v1
title: Data for: "Separating annual, decadal and regional change in Sea Surface Temperature in the Northeastern Atlantic and Nordic Seas"

description: Data to support "Separating annual, decadal and regional change in Sea Surface Temperature in the Northeastern Atlantic and Nordic Seas". Includes:
- OSTIA SST dataset<br>
- ERA5 SST dataset
- First four EOFs derived from the ERA5 SST dataset
- CTD data from the Siglunes transect north of Iceland
DOI: 10.6084/m9.figshare.24920097
title: Sequencing data of the upstream (US) and downstream (DS) in the pJET-1877US, pJET-1877DS constructs produced during the generation of the ∆<i>rv</i>1877 M.tb mutant

description: These are the sequencing data obtained for both the upstream (US) and downstream (DS) regions of rv1877, that were cloned in the pJET subcloning vector.The last 4 files, are the in silico designed pJET constructs file (that can be used as template for the alignments), with 2 orientations, since inserts could face either direction because fragments were introduced through a blunt end ligation.Since many primers were used for the sequencing, to cover the entire region of interest, there are many data files per region sequenced. However, to recognize the data files, the US files all have, ''US'' in the name, while the DS all have ''DS'' in their name (+ the specific name of the primer used to sequence)
DOI: 10.6084/m9.figshare.24920097.v1
title: Sequencing data of the upstream (US) and downstream (DS) in the pJET-1877US, pJET-1877DS constructs produced during the generation of the ∆<i>rv</i>1877 M.tb mutant

description: These are the sequencing data obtained for both the upstream (US) and downstream (DS) regions of rv1877, that were cloned in the pJET subcloning vector.The last 4 files, are the in silico designed pJET constructs file (that can be used as template for the alignments), with 2 orientations, since inserts could face either direction because fragments were introduced through a blunt end ligation.Since many primers were used for the sequencing, to cover the entire region of interest, there are many data files per region sequenced. However, to recognize the data files, the US files all have, ''US'' in the name, while the DS all have ''DS'' in their name (+ the specific name of the primer used to sequence)
DOI: 10.6084/m9.figshare.24920028
title: <b>RNA Sequencing Raw Data for the paper: </b><b>The </b><b><i>Mycobacterium tuberculosis</i></b><b> efflux pumps Rv1877 and Rv0191 play differential roles in the protection of the pathogen against chemical stress</b>

description: This the RNA Sequencing raw data presented in related manuscript.Samples names: WT: wild-type77: delta rv1877 M.tb mutant78: delta rv1878 M.tb mutant91: delta rv0191 M.tb mutantUT: means untreated, these samples were not treated with Spm prior RNA extraction.File-1 is the reference fileThen the alignment files, next the Gene fold change of all data, finally Gene fold change for only statistically significant data.<br>
DOI: 10.6084/m9.figshare.24920028.v1
title: <b>RNA Sequencing Raw Data for the paper: </b><b>The </b><b><i>Mycobacterium tuberculosis</i></b><b> efflux pumps Rv1877 and Rv0191 play differential roles in the protection of the pathogen against chemical stress</b>

description: This the RNA Sequencing raw data presented in related manuscript.Samples names: WT: wild-type77: delta rv1877 M.tb mutant78: delta rv1878 M.tb mutant91: delta rv0191 M.tb mutantUT: means untreated, these samples were not treated with Spm prior RNA extraction.File-1 is the reference fileThen the alignment files, next the Gene fold change of all data, finally Gene fold change for only statistically significant data.<br>
DOI: 10.6084/m9.figshare.25232240
title: <b>Supplemental Digital Content 2. Quality control data for cTn assays</b>

description: This table provides the quality control data for both cardiac troponin T (cTnT) and cardiac troponin I (cTnI) assays.
DOI: 10.6084/m9.figshare.25232240.v3
title: <b>Supplemental Digital Content 2. Quality control data for cTn assays</b>

description: This table provides the quality control data for both cardiac troponin T (cTnT) and cardiac troponin I (cTnI) assays.
DOI: 10.6084/m9.figshare.25232240.v2
title: <b>Supplemental Digital Content 2. Quality control data for cTn assays</b>

description: This table provides the quality control data for both cardiac troponin T (cTnT) and cardiac troponin I (cTnI) assays.
DOI: 10.17189/1520406
title: MESSENGER MDIS MAP PROJECTED BASEMAP RDR V1.0
DOI: 10.5281/zenodo.2605110
title: EEG Alpha Waves dataset

description: <strong>Summary:</strong>

This dataset contains electroencephalographic recordings of 20 subjects in a simple resting-state eyes open/closed experimental protocol. The electroencephalographic headset consisted of 16 electrodes. Data were recorded during a pilot experiment taking place in the GIPSA-lab, Grenoble, France, in 2017 (1). A full description of the experiment may be found at https://hal.archives-ouvertes.fr/hal-02086581. Python code for manipulating the data is available at https://github.com/plcrodrigues/Alpha-Waves-Dataset . The ID of this dataset is <em>ALPHA.EEG.2017-GIPSA.</em>

 

<strong>Full description of the experiment and dataset:</strong> https://hal.archives-ouvertes.fr/hal-02086581

 

<strong><em>Principal </em></strong><strong><em>Investigators</em>:</strong> Eng. Grégoire CATTAN, Eng. Pedro L. C. RODRIGUES

<br>
<strong><em>Scientific Supervisor</em></strong><strong>:</strong> Dr. Marco Congedo

 

<strong>ID of the dataset: </strong><em>ALPHA.EEG.2017-GIPSA</em>
DOI: 10.6084/m9.figshare.25232243
title: <b>Supplemental Digital Content 3. C</b><b>haracteristics of the coronary artery stenoses</b>

description: Characteristics of the coronary artery stenoses in our participants, including the CAD-RADS classification and anatomical location of the stenosis
DOI: 10.6084/m9.figshare.25232243.v1
title: <b>Supplemental Digital Content 3. C</b><b>haracteristics of the coronary artery stenoses</b>

description: Characteristics of the coronary artery stenoses in our participants, including the CAD-RADS classification and anatomical location of the stenosis
DOI: 10.6084/m9.figshare.25232243.v2
title: <b>Supplemental Digital Content 3. C</b><b>haracteristics of the coronary artery stenoses</b>

description: Characteristics of the coronary artery stenoses in our participants, including the CAD-RADS classification and anatomical location of the stenosis
DOI: 10.6084/m9.figshare.25232237
title: <b>Supplemental Digital Content 5. Author contributions</b>

description: This table provides the author contributions according to the Contributor Roles Taxonomy (CRediT).
DOI: 10.6084/m9.figshare.25232237.v2
title: <b>Supplemental Digital Content 5. Author contributions</b>

description: This table provides the author contributions according to the Contributor Roles Taxonomy (CRediT).
DOI: 10.6084/m9.figshare.25232237.v1
title: <b>Supplemental Digital Content 5. Author contributions</b>

description: This table provides the author contributions according to the Contributor Roles Taxonomy (CRediT).
DOI: 10.17189/1520380
title: MESSENGER MDIS EXPERIMENT DATA RECORD V1.0
DOI: 10.5067/gpm/dpr/3a-month/07
title: GPM DPR Precipitation Profile 1 month 0.25 degree x 0.25 degree V07
DOI: 10.6084/m9.figshare.21275956.v1
title: Additional file 2 of Bioinformatics analysis of diagnostic biomarkers for Alzheimer's disease in peripheral blood based on sex differences and support vector machine algorithm

description: Additional file 2: Supplementary Data 2. List of DEGs in males.
DOI: 10.6073/pasta/8e4f57bafaaad5677977dee51bb3077c
title: LiDAR data (October 2011) for the Blue River Watershed, Willamette National Forest

description: Watershed Sciences, Inc. (WSI) collected Light Detection and Ranging (LiDAR) data on October 27th, 28th and November 1st, 2011 for the United States Forest Service and Environmental Protection Agency. This study includes bare-earth, highest hit, vegetation height, and intensity grids. The raw point cloud data is available on request, due to massive size of the data. Derived entities include aspect, percent slope, hill shades (bare-earth and high hits), flow accumulation grid, and contours.
DOI: 10.6084/m9.figshare.7120325
title: Additional file 2: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Primers used for qRT-PCR analysis. A Microsoft Excel file containing a single work sheet “qRT-PCR Primer Information”. This table provides the chicken gene symbol, GenBank ID number, 5′-3′ sequence for forward and reverse primers, and amplicon size (bp) for each gene used for qRT-PCR analysis. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.21275959.v1
title: Additional file 3 of Bioinformatics analysis of diagnostic biomarkers for Alzheimer's disease in peripheral blood based on sex differences and support vector machine algorithm

description: Additional file 3: Supplementary Data 3. Intersected DEGs lists of males and females.
DOI: 10.6084/m9.figshare.7120334
title: Additional file 3: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Annotated gene list for 14 pairwise contrasts of liver transcriptomes in embryos and hatchlings across six ages during the peri-hatch period (E16-D9). The last worksheet provides the list of 1005 commonly-shared AR-DEGs identified by the Venn diagram shown in Fig. 3b. Each worksheet provides a list of the “Analysis Ready” (AR)-DEGs (FDR adjusted P ≤ 0.05; ±0.75 cutoff) for each contrast. (XLSX 905 kb)
DOI: 10.6084/m9.figshare.7120370.v1
title: Additional file 6: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Canonical-biological pathways identified by IPA in the contrast of E18 embryos vs. D3 hatchlings. The AR-DEGs identified in the E18 vs. D3 contrast were assigned by IPA to overrepresented canonical and functional and pathways. IPA uses Fisher’s Exact Test to determine probability (P ≤ 0.05) of each AR-DEG belonging to a particular canonical pathway or biological function. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.21275974.v1
title: Additional file 8 of Bioinformatics analysis of diagnostic biomarkers for Alzheimer's disease in peripheral blood based on sex differences and support vector machine algorithm

description: Additional file 8: Supplementary Data 8. Degree, MNC, Radiality, Stress and Closeness were used to screen 11 overlapping hub genes in females.
DOI: 10.6084/m9.figshare.21275959
title: Additional file 3 of Bioinformatics analysis of diagnostic biomarkers for Alzheimer's disease in peripheral blood based on sex differences and support vector machine algorithm

description: Additional file 3: Supplementary Data 3. Intersected DEGs lists of males and females.
DOI: 10.6084/m9.figshare.21275965
title: Additional file 5 of Bioinformatics analysis of diagnostic biomarkers for Alzheimer's disease in peripheral blood based on sex differences and support vector machine algorithm

description: Additional file 5: Supplementary Data 5. Significantly enriched GO entries and KEGG pathways in males.
DOI: 10.6084/m9.figshare.9741818.v1
title: Supplementary data from A nonlinear hyperelasticity model for single layer blue phosphorus based on <i>ab initio</i> calculations

description: figure_data.txt: Raw data for all figures; FEM_input.txt: Input file for the finite element example in Sec. 6.1; sample_DFT_input.txt: Sample input file for Quantum ESPRESSO
DOI: 10.5067/gpm/pr/trmm/3a-month/07
title: GPM PR on TRMM Reflectivity, Precipitation Statistics, Histograms, at Surface and Fixed Heights, 1 month 5x5 and 0.25x0.25 degree V07
DOI: 10.6084/m9.figshare.7120370
title: Additional file 6: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Canonical-biological pathways identified by IPA in the contrast of E18 embryos vs. D3 hatchlings. The AR-DEGs identified in the E18 vs. D3 contrast were assigned by IPA to overrepresented canonical and functional and pathways. IPA uses Fisher’s Exact Test to determine probability (P ≤ 0.05) of each AR-DEG belonging to a particular canonical pathway or biological function. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.21275965.v1
title: Additional file 5 of Bioinformatics analysis of diagnostic biomarkers for Alzheimer's disease in peripheral blood based on sex differences and support vector machine algorithm

description: Additional file 5: Supplementary Data 5. Significantly enriched GO entries and KEGG pathways in males.
DOI: 10.6084/m9.figshare.7120436.v1
title: Additional file 1: of A comparative analysis of library prep approaches for sequencing low input translatome samples

description: Table S1. Library preparation performed in this study. Table S2 Gene list with RPKM greater than 10,000. Table S3 Median of genes from unique and shared regions of Venn diagram. Table S4 Spearman correlation coefficients between different profiles. (XLSX 28 kb)
DOI: 10.6084/m9.figshare.16557627.v1
title: Ubiquitin specific peptidase 33 promotes cell proliferation and reduces apoptosis through regulation of the SP1/PI3K/AKT pathway in retinoblastoma

description: Ubiquitin-specific protease 33 (USP33), a deubiquitinating enzyme (DUB), has been identified to serve as a tumor suppressor or an oncogene in different cancers. However, its role in retinoblastoma (RB) remains unknown. Here, we aimed to uncover USP33 expression profile and function in RB, and disclose the underlying mechanism. USP33 levels in RB tissues and cells were determined using RT-qPCR and western blotting assays. USP33 effects on cell growth, cycle, apoptosis and tumorigenesis were studied using MTT, Edu, cycle and western blotting and <i>in vivo</i> assays. The results showed that USP33 expression levels were elevated in RB tissues and cells as compared with normal retinal tissues and cells. Downregulation of USP33 in RB Y79 and WERI-RB1 cells leaded to significant increases in cell apoptosis, G1 phase arrest and tumorigenesis, and reductions in cell growth and G2 and S phase arrest, as well as inhibited the activation of the PI3K/AKT signaling. SP1 overexpression abolished the roles of USP33 downregulation in modulating the activation of PI3K/AKT signaling, cell growth, apoptosis, and cell cycle. This study uncovered that USP33 promoted the progression of RB through regulation of the SP1/PI3K/AKT pathway.
DOI: 10.6084/m9.figshare.21275962.v1
title: Additional file 4 of Bioinformatics analysis of diagnostic biomarkers for Alzheimer's disease in peripheral blood based on sex differences and support vector machine algorithm

description: Additional file 4: Supplementary Data 4. Significantly enriched GO entries and KEGG pathways in females.
DOI: 10.6084/m9.figshare.7120394.v1
title: Additional file 8: of Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

description: Pearson’s correlation analysis of gene expression levels of 15 “candidate” DEGs determined by genome microarray and verified by qRT-PCR analyses. A Microsoft Excel file containing the average normalized expression levels (log2 ratios) of 15 candidate DEGs as determined by genome microarray analysis and verified by qRT-PCR analysis. The Pearson’s correlation coefficient (r = 0.9287; P ≤ 0.01, 11 degrees of freedom) indicates a highly significant correlation between gene expression levels obtained from both microarray and qRT-PCR analyses. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.20226815.v1
title: Additional file 12 of Combined nature and human selections reshaped peach fruit metabolome

description: Additional file 12: Table S11. List of the 185 accessions used in transcriptome sequencing and eQTL analysis.
DOI: 10.15468/dl.gtp332
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "TaxonKey is Eucheilota menoni Kramp, 1959",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 29 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021867-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jffgg3
title: Occurrence Download

description: A dataset containing 408 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Pharbitis purpurea (L.) Voigt"
 ]
}

 The dataset includes 408 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021868-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.