cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7770383.v1
title: Cell Lineage-specific Genome-wide DNA Methylation Analysis of Patients with Paediatric-onset Systemic Lupus Erythematosus

description: Patients with paediatric-onset systemic lupus erythematosus (SLE) often present with more severe clinical courses than adult-onset patients. Although genome-wide DNA methylation (DNAm) profiling has been performed in adult-onset SLE patients, parallel data on paediatric-onset SLE are not available. Therefore, we undertook a genome-wide DNAm study in paediatric-onset SLE patients across multiple blood cell lineages. The DNAm profiles of four purified immune cell lineages (CD4+ T cells, CD8+ T cells, B cells and neutrophils) and whole blood were compared in 16 Chinese patients with paediatric-onset SLE and 13 healthy controls using the Illumina HumanMethylationEPIC BeadChip. Comparison of DNAm in whole blood and within each independent cell lineage identified a consistent pattern of loss of DNAm at 21 CpG sites overlapping 15 genes, which represented a robust, disease-specific DNAm signature for paediatric-onset SLE in our cohort. In addition, cell lineage-specific changes, involving both loss and gain of DNAm, were observed in both novel genes and genes with well-described roles in SLE pathogenesis. This study also highlights the importance of studying DNAm changes in different immune cell lineages rather than only whole blood, since cell type-specific DNAm changes facilitated the elucidation of the cell type-specific molecular pathophysiology of SLE.
DOI: 10.7284/106441
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0812 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111643
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0813 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770350
title: annotation

description: The sentiment annotation (partial)
DOI: 10.6084/m9.figshare.7770323
title: Identification and prevalence of <i>in vivo</i>-induced genes in enterohaemorrhagic <i>Escherichia coli</i>

description: Enterohaemorrhagic <i>Escherichia coli</i> (EHEC) are food-borne pathogens responsible for bloody diarrhoea and renal failure in humans. While Shiga toxin (Stx) is the cardinal virulence factor of EHEC, its production by <i>E. coli</i> is not sufficient to cause disease and many Shiga-toxin producing <i>E. coli</i> (STEC) strains have never been implicated in human infection. So far, the pathophysiology of EHEC infection is not fully understood and more knowledge is needed to characterize the “auxiliary” factors that enable a STEC strain to cause disease in humans. In this study, we applied a recombinase-based <i>in vivo</i> expression technology (RIVET) to the EHEC reference strain EDL933 in order to identify genes specifically induced during the infectious process, using mouse as an infection model. We identified 31 <i>in vivo</i>-induced (<i>ivi</i>) genes having functions related to metabolism, stress adaptive response and bacterial virulence or fitness. Eight of the 31 <i>ivi</i> genes were found to be heterogeneously distributed in EHEC strains circulating in France these last years. In addition, they are more prevalent in strains from the TOP seven priority serotypes and particularly strains carrying significant virulence determinants such as Stx2 and intimin adhesin. This work sheds further light on bacterial determinants over-expressed <i>in vivo</i> during infection that may contribute to the potential of STEC strains to cause disease in humans.
DOI: 10.7284/106442
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0813 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770299
title: Landsat NDVI difference 1990 2002 Tile 1

description: Landsat NDVI difference 1990 2002 Tile 1
DOI: 10.6084/m9.figshare.7770323.v1
title: Identification and prevalence of <i>in vivo</i>-induced genes in enterohaemorrhagic <i>Escherichia coli</i>

description: Enterohaemorrhagic <i>Escherichia coli</i> (EHEC) are food-borne pathogens responsible for bloody diarrhoea and renal failure in humans. While Shiga toxin (Stx) is the cardinal virulence factor of EHEC, its production by <i>E. coli</i> is not sufficient to cause disease and many Shiga-toxin producing <i>E. coli</i> (STEC) strains have never been implicated in human infection. So far, the pathophysiology of EHEC infection is not fully understood and more knowledge is needed to characterize the “auxiliary” factors that enable a STEC strain to cause disease in humans. In this study, we applied a recombinase-based <i>in vivo</i> expression technology (RIVET) to the EHEC reference strain EDL933 in order to identify genes specifically induced during the infectious process, using mouse as an infection model. We identified 31 <i>in vivo</i>-induced (<i>ivi</i>) genes having functions related to metabolism, stress adaptive response and bacterial virulence or fitness. Eight of the 31 <i>ivi</i> genes were found to be heterogeneously distributed in EHEC strains circulating in France these last years. In addition, they are more prevalent in strains from the TOP seven priority serotypes and particularly strains carrying significant virulence determinants such as Stx2 and intimin adhesin. This work sheds further light on bacterial determinants over-expressed <i>in vivo</i> during infection that may contribute to the potential of STEC strains to cause disease in humans.
DOI: 10.7284/111642
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0814 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770290
title: Landsat NDVI difference 1990 2018 Tile 1

description: Landsat NDVI difference 1990 2018 Tile 1
DOI: 10.6084/m9.figshare.7770275
title: Dopaminergic gene methylation is associated with cognitive performance in a childhood monozygotic twin study

description: Individual differences in cognitive function are due to a combination of heritable and non-heritable factors. A large body of evidence from clinical, cognitive, and pharmacological neuroscience implicates dopaminergic gene variants as modulators of cognitive functions. Neuroepigenetic studies demonstrate environmental factors also influence complex phenotypes by affecting gene expression regulation. To evaluate the mechanism of environmental influence on cognitive abilities, we examined if epigenetic regulation of dopaminergic genes plays a role in cognition. Using a DNA methylation profiling microarray, we used a monozygotic (MZ) twin difference design to evaluate if co-twin differences in methylation of CpG sites near six dopaminergic genes predicted differences in response inhibition and memory performance. Studying MZ twins allows us to assess if environmentally driven differences in methylation affect differences in phenotype while controlling for the influence of genotype and shared family environment. Response inhibition was assessed with the flanker task and short-term and working memory were assessed with digit span recall. We found MZ co-twin differences in <i>DRD4</i> gene methylation predicted differences in short-term memory. MZ differences in <i>COMT, DBH, DAT1, DRD1</i>, and <i>DRD2</i> gene methylation predicted differences in response inhibition. Taken together, findings suggest methylation status of dopaminergic genes may influence cognitive functions in a dissociable manner. Our results highlight the importance of the epigenome and environment, over and above the influence of genotype, in supporting complex cognitive functions.
DOI: 10.6084/m9.figshare.7770299.v1
title: Landsat NDVI difference 1990 2002 Tile 1

description: Landsat NDVI difference 1990 2002 Tile 1
DOI: 10.6084/m9.figshare.7770299.v2
title: Landsat NDVI difference 1990 2002 Tile 1

description: Landsat NDVI difference 1990 2002 Tile 1
DOI: 10.7284/106443
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0814 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770290.v2
title: Landsat NDVI difference 1990 2018 Tile 1

description: Landsat NDVI difference 1990 2018 Tile 1
DOI: 10.7284/106444
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0815 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770275.v2
title: Dopaminergic gene methylation is associated with cognitive performance in a childhood monozygotic twin study

description: Individual differences in cognitive function are due to a combination of heritable and non-heritable factors. A large body of evidence from clinical, cognitive, and pharmacological neuroscience implicates dopaminergic gene variants as modulators of cognitive functions. Neuroepigenetic studies demonstrate environmental factors also influence complex phenotypes by affecting gene expression regulation. To evaluate the mechanism of environmental influence on cognitive abilities, we examined if epigenetic regulation of dopaminergic genes plays a role in cognition. Using a DNA methylation profiling microarray, we used a monozygotic (MZ) twin difference design to evaluate if co-twin differences in methylation of CpG sites near six dopaminergic genes predicted differences in response inhibition and memory performance. Studying MZ twins allows us to assess if environmentally driven differences in methylation affect differences in phenotype while controlling for the influence of genotype and shared family environment. Response inhibition was assessed with the flanker task and short-term and working memory were assessed with digit span recall. We found MZ co-twin differences in <i>DRD4</i> gene methylation predicted differences in short-term memory. MZ differences in <i>COMT, DBH, DAT1, DRD1</i>, and <i>DRD2</i> gene methylation predicted differences in response inhibition. Taken together, findings suggest methylation status of dopaminergic genes may influence cognitive functions in a dissociable manner. Our results highlight the importance of the epigenome and environment, over and above the influence of genotype, in supporting complex cognitive functions.
DOI: 10.6084/m9.figshare.7770290.v1
title: Landsat NDVI difference 1990 2018 Tile 1

description: Landsat NDVI difference 1990 2018 Tile 1
DOI: 10.6084/m9.figshare.7770275.v1
title: Dopaminergic Gene Methylation is Associated with Cognitive Performance in a Childhood Monozygotic Twin Study

description: Individual differences in cognitive function are due to a combination of heritable and non-heritable factors. A large body of evidence from clinical, cognitive, and pharmacological neuroscience implicates dopaminergic gene variants as modulators of cognitive functions. Neuroepigenetic studies demonstrate environmental factors also influence complex phenotypes by affecting gene expression regulation. To evaluate the mechanism of environmental influence on cognitive abilities, we examined if epigenetic regulation of dopaminergic genes plays a role in cognition. Using a DNA methylation profiling microarray, we used a monozygotic (MZ) twin difference design to evaluate if co-twin differences in methylation of CpG sites near six dopaminergic genes predicted differences in response inhibition and memory performance. Studying MZ twins allows us to assess if environmentally driven differences in methylation affect differences in phenotype while controlling for the influence of genotype and shared family environment. Response inhibition was assessed with the flanker task and short-term and working memory were assessed with digit span recall. We found MZ co-twin differences in <i>DRD4</i> gene methylation predicted differences in short-term memory. MZ differences in <i>COMT, DBH, DAT1, DRD1</i>, and <i>DRD2</i> gene methylation predicted differences in response inhibition. Taken together, findings suggest methylation status of dopaminergic genes may influence cognitive functions in a dissociable manner. Our results highlight the importance of the epigenome and environment, over and above the influence of genotype, in supporting complex cognitive functions.
DOI: 10.7284/111640
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0816 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770266.v1
title: Supplemental material.docx

description: Primers applied in a mauscript, and supplemental figures.
DOI: 10.7284/106445
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0816 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770242
title: Additional file 2: of Plasma metabolites and lipids associate with kidney function and kidney volume in hypertensive ADPKD patients early in the disease course

description: Table S1. Significant (p
DOI: 10.6084/m9.figshare.7770242.v1
title: Additional file 2: of Plasma metabolites and lipids associate with kidney function and kidney volume in hypertensive ADPKD patients early in the disease course

description: Table S1. Significant (p
DOI: 10.7284/111639
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0817 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106446
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0817 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106447
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0818 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111637
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0819 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770200
title: Additional file 1: of Screening for periodontal diseases by non-dental health professionals: a protocol for a systematic review and overview of reviews

description: Data abstraction form. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.7770194
title: Additional file 2: of Evaluation of age, weaning weight, body condition score, and reproductive tract score in pre-selected beef heifers relative to reproductive potential

description: Code used to analyze the data and obtain the results presented on this paper. (HTML 1819 kb)
DOI: 10.6084/m9.figshare.7770200.v1
title: Additional file 1: of Screening for periodontal diseases by non-dental health professionals: a protocol for a systematic review and overview of reviews

description: Data abstraction form. (XLSX 18 kb)
DOI: 10.7284/106448
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0819 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770194.v1
title: Additional file 2: of Evaluation of age, weaning weight, body condition score, and reproductive tract score in pre-selected beef heifers relative to reproductive potential

description: Code used to analyze the data and obtain the results presented on this paper. (HTML 1819 kb)
DOI: 10.7284/111636
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0820 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106449
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0820 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770158
title: Additional file 1: of How to eliminate taeniasis/cysticercosis: porcine vaccination and human chemotherapy (Part 2)

description: Matlab Programs. (RAR 6 kb)
DOI: 10.6084/m9.figshare.7770158.v1
title: Additional file 1: of How to eliminate taeniasis/cysticercosis: porcine vaccination and human chemotherapy (Part 2)

description: Matlab Programs. (RAR 6 kb)
DOI: 10.7284/111635
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0821 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106450
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0821 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770047
title: Suárez-Santiago & Jiménez-Martínez_Origen y evolución de la flora vascular de Sierra Nevada: una perspectiva molecular. Tabla 1

description: Tabla 1. Relación de especies presentes en Sierra Nevada para la que hay estudios a nivel molecular. Se indican las especies, el tipo de estudio realizado, los marcadores moleculares empleados, observaciones sobre las principales conclusiones alcanzadas y las referencias bibliográfica. <br>
DOI: 10.6084/m9.figshare.7770026
title: pone参考文章的附件材料.docx

description: this is a test
DOI: 10.6084/m9.figshare.7770047.v2
title: Suárez-Santiago & Jiménez-Martínez_Origen y evolución de la flora vascular de Sierra Nevada: una perspectiva molecular. Tabla 1

description: Tabla 1. Relación de especies presentes en Sierra Nevada para la que hay estudios a nivel molecular. Se indican las especies, el tipo de estudio realizado, los marcadores moleculares empleados, observaciones sobre las principales conclusiones alcanzadas y las referencias bibliográfica. <br>
DOI: 10.7284/106451
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0822 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770026.v1
title: pone参考文章的附件材料.docx

description: this is a test
DOI: 10.6084/m9.figshare.7770044.v1
title: Tools construction.xlsx

description: Basic protein regulation units; Dynamic analysis; Fluorescence detection;
DOI: 10.6084/m9.figshare.7770047.v1
title: Suárez-Santiago & Jiménez-Martínez_Origen y evolución de la flora vascular de Sierra Nevada: una perspectiva molecular

description: Tabla suplementaria 1. Relación de especies presentes en Sierra Nevada para la que hay estudios a nivel molecular. Se indican las especies, el tipo de estudio realizado, los marcadores moleculares empleados, observaciones sobre las principales conclusiones alcanzadas y las referencias bibliográfica. <br>
DOI: 10.7284/111633
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0823 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7770044.v2
title: Tools construction and evaluation

description: Basic protein regulation units; Dynamic analysis; Fluorescence detection;
DOI: 10.7284/106452
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0823 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7769975
title: The raw data of the article - Comparative analysis and characterization of the gut microbiota of four farmed snakes from southern China

description: In this study we characterized and compared the gut microbiotas of four species of farmed snakes (<i>Naja atra</i>, <i>Ptyas mucosa</i>, <i>Elaphe </i><i>carinata</i>, and <i>Deinagkistrodon acutus</i>) using high-throughput sequencing of the 16S rDNA gene in southern China and tested whether there was a relationship between gut microbiotal composition and host species. Fecal samples were collected from specimens of <i>N</i>.<i> </i><i>atra</i>, <i>P</i>.<i> </i><i>mucosa</i>, <i>E</i>.<i> </i><i>carinata</i>, and <i>D</i>.<i> </i><i>acutus</i>. Fresh fecal samples from same individuals were collected using a sterilized sampling spoon and put in the same centrifuge tube: <i>N</i>.<i> </i><i>atra </i>(group 'Na'; n=6), <i>P</i>.<i> </i><i>mucosa </i>(group 'Pmu'; n=4), <i>E</i>.<i> </i><i>carinata</i> (group 'Ec'; n=6), and <i>D</i>.<i> </i><i>acutus </i>(group 'Da'; n=6). All fresh samples were immediately submerged in liquid nitrogen, and then frozen at -20°C within 10 h. Samples were sent within 12 h on dry ice to the Wuhan Sample Center of Beijing Genomics Institute (BGI; Wuhan, China) for DNA extraction. Total DNA was extracted from the fecal samples using an E.Z.N.A. Stool DNA Kit (Omega Bio-tek, Inc., USA). The V4 hypervariable region of the 16S rDNA gene was amplified using polymerase chain reaction (PCR), with the primers 515F (5ʼ-GTGCCAGCMGCCGCGGTAA-3ʼ) and 806R (5ʼ-GGACTACHVGGGTWTCTAAT-3ʼ). Qualified libraries were pair-end sequenced on a MiSeq System (Illumina, San Diego, CA, USA) with MiSeq reagents using the PE250 (PE251+8+8+251) sequencing strategy, following the manufacturer's instructions. All libraries were sequenced on the Illumina MiSeq platform by the BGI (Wuhan, China). The raw sequencing data were filtered, and the low quality reads were removed using an in-house procedure. Paired end reads are merged to tags: If the two paired-end reads overlapped, the consensus sequence was generated by FLASH (Fast Length Adjustment of Short reads, v1.2.11), and the details of the method are as follows: 1) Minimal overlapping length: 15 bp; 2) Mismatching ratio of overlapped region: &lt;= 0.1. Removal of paired end reads without overlaps.