cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19769188
title: Additional file 6 of Natural selenium stress influences the changes of antibiotic resistome in seleniferous forest soils

description: Additional file 6: Material 2. The genome annotation of various putative proteins involved in Se resistance and antibiotic resistance of Pseudomonas putida.
DOI: 10.6084/m9.figshare.19769182
title: Additional file 5 of Natural selenium stress influences the changes of antibiotic resistome in seleniferous forest soils

description: Additional file 5: Material 1. The genome annotation of various putative proteins involved in Se resistance and antibiotic resistance of Lelliottia amnigena YTB01.
DOI: 10.6084/m9.figshare.15058221
title: Additional file 1 of Effect of COVID-19 on epidemiological characteristics of road traffic injuries in Suzhou: a retrospective study

description: Additional file 1.
DOI: 10.6084/m9.figshare.15058095.v1
title: Additional file 2 of Analysis of immune cell components and immune-related gene expression profiles in peripheral blood of patients with type 1 diabetes mellitus

description: Additional file 2. The 124 down-regulated genes
DOI: 10.6084/m9.figshare.7193795
title: Additional file 8: of Identifying key bird species and geographical hotspots of avian influenza A (H7N9) virus in China

description: A list of identified bird species in Shanghai and other five provinces. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.7193870
title: Additional file 1: of Transcriptome analysis of radish sprouts hypocotyls reveals the regulatory role of hydrogen-rich water in anthocyanin biosynthesis under UV-A

description: Table S1. The primers of 16 DEGs validated by qRT-PCR analysis. (XLS 33 kb)
DOI: 10.6084/m9.figshare.7193870.v1
title: Additional file 1: of Transcriptome analysis of radish sprouts hypocotyls reveals the regulatory role of hydrogen-rich water in anthocyanin biosynthesis under UV-A

description: Table S1. The primers of 16 DEGs validated by qRT-PCR analysis. (XLS 33 kb)
DOI: 10.6084/m9.figshare.15058107
title: Additional file 6 of Analysis of immune cell components and immune-related gene expression profiles in peripheral blood of patients with type 1 diabetes mellitus

description: Additional file 6. The network of hub genes and KEGG interaction
DOI: 10.15151/esrf-es-1522269134
title: Structural Biology at EMBL Grenoble, IBS-CIBB and IAB

description: This proposal clusters crystallography and bioSAXS projects at the EMBL Grenoble, IBS-CIBB and IAB. It combines groups working on different topics with a major focus on cell signaling proteins, drug discovery, long non-coding RNAs, nucleic acid-protein complexes, and host-pathogen interactions. The proposers have long-standing experience in the use, as well as the development of beam lines for macromolecular crystallography and biological small angle X-ray scattering and have participated in successive BAG applications over the years, mostly at the ESRF but also at other synchrotrons (i.e. Soleil, Petra III, and Diamond). As Stephen Cusack (former head of EMBL Grenoble) will be retiring at the end of 2023 we propose to change the BAG responsible to Andrew McCarthy for this application round.
DOI: 10.6084/m9.figshare.7193795.v1
title: Additional file 8: of Identifying key bird species and geographical hotspots of avian influenza A (H7N9) virus in China

description: A list of identified bird species in Shanghai and other five provinces. (XLSX 23 kb)
DOI: 10.25386/genetics.11388195.v1
title: Supplemental Material for Li et al., 2020

description: This is the zipped file for File S1 that contains all the supplementary tables and figures.
DOI: 10.6084/m9.figshare.7057025.v1
title: MOESM13 of Development and characterization of stable anaerobic thermophilic methanogenic microbiomes fermenting switchgrass at decreasing residence times

description: Additional file 13: Table S7. Total CAZyme domain counts normalized by number of matching bins for a species and modular CAZymes detected in the matching bins for each species. Taxon are ordered as seen in Fig.Â 5.
DOI: 10.11583/dtu.23659524.v2
title: RumexLeaves: Dataset introduced by Paper <b>"</b>Zoom in on the Plant: Fine-Grained Analysis of Leaf, Stem, and Vein Instances<b>"</b>

description: RumexLeaves is a image dataset with fine-grained annotation of Rumex obtusifolius weeds. For each indivudal leaf, we provide a pixel-level segmentation mask as well as a keypoint-guided polyline along stem and major vein of the leaf. The dataset includes 809 images with 7747 annotations, while it is differntiated between two types of datapoints: (1) iNaturalist datapoints have been downloaded from the plant publisher iNaturalist and (2) RoboRumex that have been collected with a Husky Robot platform. The following table gives an overview of the dataset.
<br>
|                               | Total     | iNaturalist   | RoboRumex |<br>
| # Images               | 809       | 690             | 119               |<br>
| # Leaves w stem   | 3460     | 3250           | 210               |<br>
| # Leaves wo stem | 4287     | 3916           | 371               |<br>
<br>
DOI: 10.6073/pasta/626834ac6448d924a03581246b301a20
title: Isotopic Variation of Soil Macrofossils from Shark River Slough, Everglades National Park (FCE) in December 2004

description: These data represent stable isotopic signatures of selected macrofossils from soil cores from Shark Slough sites, including FCE LTER site SRS3. Soils from 1-cm depth increments were analyzed for macrofossil content (mainly seeds) and seeds were processed for d13C and d15N isotopic signatures. These analyses contribute to a paleoecological study to quantify past changes in vegetation and soil accumulation in relation to past climate variation, fire occurrences and water management.
DOI: 10.6084/m9.figshare.7194374
title: MOESM2 of New insights into long noncoding RNAs and pseudogenes in prognosis of renal cell carcinoma

description: Additional file 2: Table S1. Â All approved LncRNAs from HGNC.
DOI: 10.6084/m9.figshare.14526410
title: Additional file 2 of Comparative genome analysis of multidrug-resistant Pseudomonas aeruginosa JNQH-PA57, a clinically isolated mucoid strain with comprehensive carbapenem resistance mechanisms

description: Additional file 2: Table S2. Strains of clinically isolated P. aeruginosa used in this study downloaded from Pseudomonas genome database based on the availability of complete genomes
DOI: 10.6084/m9.figshare.7057025
title: MOESM13 of Development and characterization of stable anaerobic thermophilic methanogenic microbiomes fermenting switchgrass at decreasing residence times

description: Additional file 13: Table S7. Total CAZyme domain counts normalized by number of matching bins for a species and modular CAZymes detected in the matching bins for each species. Taxon are ordered as seen in Fig.Â 5.
DOI: 10.6084/m9.figshare.15058213
title: Additional file 7 of DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell

description: Additional file 7: Table S5. The description of used Hi-C and single-cell Hi-C data.
DOI: 10.6084/m9.figshare.15058213.v1
title: Additional file 7 of DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell

description: Additional file 7: Table S5. The description of used Hi-C and single-cell Hi-C data.
DOI: 10.11583/dtu.23659524
title: RumexLeaves: Dataset introduced by Paper <b>"</b>Zoom in on the Plant: Fine-Grained Analysis of Leaf, Stem, and Vein Instances<b>"</b>

description: RumexLeaves is a image dataset with fine-grained annotation of Rumex obtusifolius weeds. For each indivudal leaf, we provide a pixel-level segmentation mask as well as a keypoint-guided polyline along stem and major vein of the leaf. The dataset includes 809 images with 7747 annotations, while it is differntiated between two types of datapoints: (1) iNaturalist datapoints have been downloaded from the plant publisher iNaturalist and (2) RoboRumex that have been collected with a Husky Robot platform. The following table gives an overview of the dataset.
<br>
|                               | Total     | iNaturalist   | RoboRumex |<br>
| # Images               | 809       | 690             | 119               |<br>
| # Leaves w stem   | 3460     | 3250           | 210               |<br>
| # Leaves wo stem | 4287     | 3916           | 371               |<br>
<br>
DOI: 10.6084/m9.figshare.7057010.v1
title: MOESM12 of Development and characterization of stable anaerobic thermophilic methanogenic microbiomes fermenting switchgrass at decreasing residence times

description: Additional file 12: Table S6. Addition statistics for the metagenome assemblies and bins.
DOI: 10.6084/m9.figshare.7718363
title: Wu & Wang_Table S1_ESM from Convergent evolution of bird-mammal shared characteristics for adapting to nocturnality.

description: Species and sequences used in this study. Our previously published 15 species names and two newly generated in this study are highlighted in bold. The 33 phototransduction genes with sequence length after deleting gaps are also shown.
DOI: 10.6084/m9.figshare.15058201
title: Additional file 3 of DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell

description: Additional file 3: Table S1. The statistics of predicted TAD-like domains using three methods with Tan’s data.
DOI: 10.6084/m9.figshare.7718363.v2
title: Wu & Wang_Table S1_ESM from Convergent evolution of bird-mammal shared characteristics for adapting to nocturnality.

description: Species and sequences used in this study. Our previously published 15 species names and two newly generated in this study are highlighted in bold. The 33 phototransduction genes with sequence length after deleting gaps are also shown.
DOI: 10.6084/m9.figshare.7194413.v1
title: MOESM5 of New insights into long noncoding RNAs and pseudogenes in prognosis of renal cell carcinoma

description: Additional file 5: Table S4. Â 27 LncRNAs were closely related to prognosis.
DOI: 10.6084/m9.figshare.7718363.v1
title: Wu & Wang_Table S1_ESM from Convergent evolution of bird-mammal shared characteristics for adapting to nocturnality

description: Species and sequences used in this study. Our previously published 15 species names and two newly generated in this study are highlighted in bold. The 33 phototransduction genes with sequence length after deleting gaps are also shown.
DOI: 10.5281/zenodo.10684191
title: Data and script for movement data in article Burte et al. (2023) Movement Ecology

description: This contains the raw data for article:

 Burte, V., Cointe, M., Perez, G. et al. When complex movement yields simple dispersal: behavioural heterogeneity, spatial spread and parasitism in groups of micro-wasps. Mov Ecol 11, 13 (2023).

(https://doi-org.insb.bib.cnrs.fr/10.1186/s40462-023-00371-8)

 

The archive contains:

-- script_Burte_et_al_2023.r: main R script

-- mixture.r: secondary R script (utility functions)

-- fraction_parasitisme_spirale: dataset for parasitism rates

-- position_eggs.csv: dataset for the location of host eggs in experiments

-- allcoordonnees_spirale.csv: dataset for the detections of individuals during experiments
DOI: 10.5281/zenodo.10684192
title: Data and script for movement data in article Burte et al. (2023) Movement Ecology

description: This contains the raw data for article:

 Burte, V., Cointe, M., Perez, G. et al. When complex movement yields simple dispersal: behavioural heterogeneity, spatial spread and parasitism in groups of micro-wasps. Mov Ecol 11, 13 (2023).

(https://doi-org.insb.bib.cnrs.fr/10.1186/s40462-023-00371-8)

 

The archive contains:

-- script_Burte_et_al_2023.r: main R script

-- mixture.r: secondary R script (utility functions)

-- fraction_parasitisme_spirale: dataset for parasitism rates

-- position_eggs.csv: dataset for the location of host eggs in experiments

-- allcoordonnees_spirale.csv: dataset for the detections of individuals during experiments
DOI: 10.6084/m9.figshare.15058201.v1
title: Additional file 3 of DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell

description: Additional file 3: Table S1. The statistics of predicted TAD-like domains using three methods with Tan’s data.
DOI: 10.6084/m9.figshare.7194293
title: MOESM10 of New insights into long noncoding RNAs and pseudogenes in prognosis of renal cell carcinoma

description: Additional file 10: Table S9. Â Expressions of LncRNAs and pseudogenes with intact clinical data.
DOI: 10.6084/m9.figshare.7194446
title: MOESM7 of New insights into long noncoding RNAs and pseudogenes in prognosis of renal cell carcinoma

description: Additional file 7: Table S6. Â Alterations ofÂ pseudogenes, including mutation, copy number alteration and expression.
DOI: 10.6084/m9.figshare.7194194
title: Additional file 4: of Data integration by multi-tuning parameter elastic net regression

description: Listing of features that have more chance to be selected by MTP EN in AML and PRAD datasets. (DOCX 29 kb)
DOI: 10.6084/m9.figshare.15058326
title: DNA methylome in visceral adipose tissue can discriminate patients with and without colorectal cancer

description: Adipose tissue dysfunction, particularly the visceral (VAT) compartment, has been proposed to play a relevant role in colorectal cancer (CRC) development and progression. Epigenetic mechanisms could be involved in this association. The current study aimed to evaluate if specific epigenetic marks in VAT are associated with colorectal cancer (CRC) to identify epigenetic hallmarks of adipose tissue-related CRC. Epigenome-wide DNA methylation was evaluated in VAT from 25 healthy participants and 29 CRC patients, using the Infinium HumanMethylation450K BeadChip. The epigenome-wide methylation analysis identified 170,184 sites able to perfectly separate the CRC and healthy samples. The differentially methylated CpG sites (DMCpGs) showed a global trend for increased methylated levels in CRC with respect to healthy group. Most of the genes encoded by the DMCpGs belonged to metabolic pathways and cell cycle, insulin resistance, and adipocytokine signalling, as well as tumoural transformation processes. In gene-specific analyses, involved genes biologically relevant for the development of CRC include <i>PTPRN2, MAD1L1, TNXB, DIP2C, INPP5A, HDCA4, PRDM16, RPTOR, ATP11A, TBCD, PABPC3,</i> and <i>IER2</i>. The methylation level of some of them showed a discriminatory capacity for detecting CRC higher than 90%, showing <i>IER2</i> to have the highest capacity. This study reveals that a specific methylation pattern of VAT is associated with CRC. Some of the epigenetic marks identified could provide useful tools for the prediction and personalized treatment of CRC connected to excess adiposity.
DOI: 10.6084/m9.figshare.15058326.v1
title: DNA methylome in visceral adipose tissue can discriminate patients with and without colorectal cancer

description: Adipose tissue dysfunction, particularly the visceral (VAT) compartment, has been proposed to play a relevant role in colorectal cancer (CRC) development and progression. Epigenetic mechanisms could be involved in this association. The current study aimed to evaluate if specific epigenetic marks in VAT are associated with colorectal cancer (CRC) to identify epigenetic hallmarks of adipose tissue-related CRC. Epigenome-wide DNA methylation was evaluated in VAT from 25 healthy participants and 29 CRC patients, using the Infinium HumanMethylation450K BeadChip. The epigenome-wide methylation analysis identified 170,184 sites able to perfectly separate the CRC and healthy samples. The differentially methylated CpG sites (DMCpGs) showed a global trend for increased methylated levels in CRC with respect to healthy group. Most of the genes encoded by the DMCpGs belonged to metabolic pathways and cell cycle, insulin resistance, and adipocytokine signalling, as well as tumoural transformation processes. In gene-specific analyses, involved genes biologically relevant for the development of CRC include <i>PTPRN2, MAD1L1, TNXB, DIP2C, INPP5A, HDCA4, PRDM16, RPTOR, ATP11A, TBCD, PABPC3,</i> and <i>IER2</i>. The methylation level of some of them showed a discriminatory capacity for detecting CRC higher than 90%, showing <i>IER2</i> to have the highest capacity. This study reveals that a specific methylation pattern of VAT is associated with CRC. Some of the epigenetic marks identified could provide useful tools for the prediction and personalized treatment of CRC connected to excess adiposity.
DOI: 10.6084/m9.figshare.15058204
title: Additional file 4 of DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell

description: Additional file 4: Table S2. The statistics of predicted TAD-like domains using three methods with Flyamer’s data.
DOI: 10.6084/m9.figshare.15058207
title: Additional file 5 of DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell

description: Additional file 5: Table S3. The statistics of predicted TAD-like domains using three methods with Li’s data.
DOI: 10.15468/dl.bg4kmh
title: Occurrence Download

description: A dataset containing 2984 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eidolon helvum (Kerr, 1792)"
 ]
}

 The dataset includes 2984 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0287789-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.l9jg1x
title: Occurrence Download

description: A dataset containing 230 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Coleção de Herpetofauna do Museu de Ciências Univates"
 ]
}

 The dataset includes 230 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010357-160822134323880/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bkgqs6
title: Occurrence Download

description: A dataset containing 447 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Macroptilium bracteatum (Nees & Mart.) Maréchal & Baudet"
 ]
}

 The dataset includes 447 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084026-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hujvwm
title: Occurrence Download

description: A dataset containing 27558 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Polioptila californica Brewster, 1881"
 ]
}

 The dataset includes 27558 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250001-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7hr6pj
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Italy",
 "TaxonKey is Veronica spuria L."
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0314256-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9v6gg7
title: Occurrence Download

description: A dataset containing 306 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Chelonoidis carbonaria Bour, 1980"
 ]
}

 The dataset includes 306 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084027-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ghfqbg
title: Occurrence Download

description: A dataset containing 1262 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mormidea Amyot & Serville, 1843",
 "DatasetKey is Texas A&M University Insect Collection"
 ]
}

 The dataset includes 1262 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010362-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j5bzng
title: Occurrence Download

description: A dataset containing 141 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Glycine syndetika B.E.Pfeil & Craven"
 ]
}

 The dataset includes 141 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250648-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.umtrz9
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lonchocarpus variabilis R.R.Silva & A.M.G.Azevedo"
 ]
}

 The dataset includes 52 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0299276-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4q2vbm
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Analyses of the recent components of sediment core PS1219-1"
 ]
}

 The dataset includes 7 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010364-160623103540712/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.et87n5
title: Occurrence Download

description: A dataset containing 3012 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((110.39063 -47.89572,156.09375 -47.89572,156.09375 -10.34951,110.39063 -10.34951,110.39063 -47.89572))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Tursiops aduncus (Ehrenberg, 1833)"
 ]
}

 The dataset includes 3012 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059468-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.l8ctls
title: Occurrence Download

description: A dataset containing 1311 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudoseisura cristata (Spix, 1824)"
 ]
}

 The dataset includes 1311 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037063-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wghgh7
title: Occurrence Download

description: A dataset containing 173589 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ulmus minor Mill.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 173589 records from 485 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0299269-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.