cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4573423
title: Plasma protein profiling for potential biomarkers in the early diagnosis of Alzheimer’s disease

description: <b>Objectives</b>: Alzheimer’s disease (AD) is the most common cause of dementia in elderly persons. Since the pathology of AD develops slowly from a preclinical or early phase into a fully expressed clinical syndrome, at the time of diagnosis the disease has been progressing for many years. To facilitate the early diagnosis of AD, we performed protein profiling of blood in patients with mild AD as defined by the Functional Assessment Staging (FAST) scale. <b>Methods</b>: Plasma samples from mild AD patients and healthy controls were analyzed using two-dimensional differential gel electrophoresis (2D-DIGE) combined with matrix-assisted laser desorption ionization time-of-flight tandem mass spectrometry (MALDI-TOF/TOF/MS) followed by peptide mass fingerprinting. <b>Results</b>: Three downregulated proteins were identified: apolipoprotein A-1, alpha-2-HS-glycoprotein, and afamin. Two proteins, including apolipoprotein A-4 and fibrinogen gamma chain, were upregulated in mild AD patients. <b>Discussion</b>: Our results suggest that altered expression levels of these proteins in plasma may yield candidate biomarkers for the early diagnosis of AD. <b>Abbreviations</b>: AD, Alzheimer’s disease; FAST, Functional Assessment Staging; 2D-DIGE, two-dimensional differential gel electrophoresis; MALDI-TOF/TOF/MS, matrix-assisted laser desorption ionization time-of-flight tandem mass spectrometry; CSF, cerebrospinal fluid; Aβ, amyloid beta; MMSE, Mini Mental State Examination; MRI, magnetic resonance imaging; NINCDS-ADRDA, National Institute for Neurological Diseases and Stroke/Alzheimer’s Disease and Related Disorders Association; CHAPS, 3-((3-cholamidopropyl) dimethylammonio)-1-propanesulfonate; DTT, dithiothreitol; SDS-PAGE, SDS-polyacrylamide gel electrophoresis; DIA, differential in-gel analysis; BVA, biological variation analysis; CBB, Coomassie brilliant blue; 2DE, two-dimensional gel electrophoresis; TFA, trifluoroacetic acid; ACTH, adrenocorticotropic hormone; Apo A-1, apolipoprotein A-1; AHSG, alpha-2-HS-glycoprotein; Apo A-4, apolipoprotein A-4; MCI, mild cognitive impairment.
DOI: 10.6084/m9.figshare.4573438.v1
title: OCC provenance data of all the bibliographic entries, as of December 24, 2016

description: <pre>This archive contains the dump of the OpenCitation Corpus (OCC, http://opencitations.net) provenance data about bibliographic entries, created regularly every month.<br><br>After unzipping the archive, Disk ARchive (DAR, http://dar.linux.free.fr/, a multi-platform archive tool for managing huge amount of data) is needed for recreating the whole structure. For extracting the DAR archive, please run the command<br><br>dar -x [archive-name]<br><br>Where "[archive-name"] is the name of the DAR file without final package number and extension. E.g.:<br><br>dar -x 2016-09-23-corpus_re<br><br>For further questions, comments, and suggestions please don't hesitate to contact Silvio Peroni at essepuntato@opencitations.net.</pre>
DOI: 10.6084/m9.figshare.4573423.v1
title: Plasma protein profiling for potential biomarkers in the early diagnosis of Alzheimer’s disease

description: <b>Objectives</b>: Alzheimer’s disease (AD) is the most common cause of dementia in elderly persons. Since the pathology of AD develops slowly from a preclinical or early phase into a fully expressed clinical syndrome, at the time of diagnosis the disease has been progressing for many years. To facilitate the early diagnosis of AD, we performed protein profiling of blood in patients with mild AD as defined by the Functional Assessment Staging (FAST) scale. <b>Methods</b>: Plasma samples from mild AD patients and healthy controls were analyzed using two-dimensional differential gel electrophoresis (2D-DIGE) combined with matrix-assisted laser desorption ionization time-of-flight tandem mass spectrometry (MALDI-TOF/TOF/MS) followed by peptide mass fingerprinting. <b>Results</b>: Three downregulated proteins were identified: apolipoprotein A-1, alpha-2-HS-glycoprotein, and afamin. Two proteins, including apolipoprotein A-4 and fibrinogen gamma chain, were upregulated in mild AD patients. <b>Discussion</b>: Our results suggest that altered expression levels of these proteins in plasma may yield candidate biomarkers for the early diagnosis of AD. <b>Abbreviations</b>: AD, Alzheimer’s disease; FAST, Functional Assessment Staging; 2D-DIGE, two-dimensional differential gel electrophoresis; MALDI-TOF/TOF/MS, matrix-assisted laser desorption ionization time-of-flight tandem mass spectrometry; CSF, cerebrospinal fluid; Aβ, amyloid beta; MMSE, Mini Mental State Examination; MRI, magnetic resonance imaging; NINCDS-ADRDA, National Institute for Neurological Diseases and Stroke/Alzheimer’s Disease and Related Disorders Association; CHAPS, 3-((3-cholamidopropyl) dimethylammonio)-1-propanesulfonate; DTT, dithiothreitol; SDS-PAGE, SDS-polyacrylamide gel electrophoresis; DIA, differential in-gel analysis; BVA, biological variation analysis; CBB, Coomassie brilliant blue; 2DE, two-dimensional gel electrophoresis; TFA, trifluoroacetic acid; ACTH, adrenocorticotropic hormone; Apo A-1, apolipoprotein A-1; AHSG, alpha-2-HS-glycoprotein; Apo A-4, apolipoprotein A-4; MCI, mild cognitive impairment.
DOI: 10.6084/m9.figshare.4573414
title: OCC provenance data of all the agent roles, as of December 24, 2016

description: <pre>This archive contains the dump of the OpenCitation Corpus (OCC, http://opencitations.net) provenance data about author roles, created regularly every month.<br><br>After unzipping the archive, Disk ARchive (DAR, http://dar.linux.free.fr/, a multi-platform archive tool for managing huge amount of data) is needed for recreating the whole structure. For extracting the DAR archive, please run the command<br><br>dar -x [archive-name]<br><br>Where "[archive-name"] is the name of the DAR file without final package number and extension. E.g.:<br><br>dar -x 2016-09-23-corpus_re<br><br>For further questions, comments, and suggestions please don't hesitate to contact Silvio Peroni at essepuntato@opencitations.net.</pre>
DOI: 10.6084/m9.figshare.4573414.v1
title: OCC provenance data of all the agent roles, as of December 24, 2016

description: <pre>This archive contains the dump of the OpenCitation Corpus (OCC, http://opencitations.net) provenance data about author roles, created regularly every month.<br><br>After unzipping the archive, Disk ARchive (DAR, http://dar.linux.free.fr/, a multi-platform archive tool for managing huge amount of data) is needed for recreating the whole structure. For extracting the DAR archive, please run the command<br><br>dar -x [archive-name]<br><br>Where "[archive-name"] is the name of the DAR file without final package number and extension. E.g.:<br><br>dar -x 2016-09-23-corpus_re<br><br>For further questions, comments, and suggestions please don't hesitate to contact Silvio Peroni at essepuntato@opencitations.net.</pre>
DOI: 10.6084/m9.figshare.4573180
title: Game Teorema Pythagoras(Adrianus Galang Permana Putra) - Pipe - Unity Version

description: game pythagoras, piperevisi ganti platform dari html ke unity
DOI: 10.6084/m9.figshare.4573180.v1
title: Game Teorema Pythagoras(Adrianus Galang Permana Putra) - Pipe - Unity Version

description: game pythagoras, piperevisi ganti platform dari html ke unity
DOI: 10.6084/m9.figshare.4573036
title: control_vs_comparison.gene_exp-SUV KO.xls

description: RNA-seq dataSUV KO PC3 cell line
DOI: 10.6084/m9.figshare.4573021
title: Dallas lifespan brain study anatomical segmentations

description: http://fcon_1000.projects.nitrc.org/indi/retro/dlbs.html segmentations for the anatomical images<br>summary demographics file: dlbs_demog.csv<br>template in: template.zip p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 14.0px Menlo; background-color: #fef49c} span.s1 {font-variant-ligatures: no-common-ligatures} <br>Affine transformations to the template in file: toTemplateAffineMaps.zip p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 14.0px Menlo; background-color: #fef49c} span.s1 {font-variant-ligatures: no-common-ligatures}
DOI: 10.6084/m9.figshare.4573036.v1
title: control_vs_comparison.gene_exp-SUV KO.xls

description: RNA-seq dataSUV KO PC3 cell line
DOI: 10.6084/m9.figshare.4572931
title: Tableau 2. Marché bancaire. Répartition résidents/non-résidents (mds d'écus)

description: Données relatives à l'évolution du marché bancaire entre les résidents et les non-résidents. Source: Commission européenne.<br>
DOI: 10.6084/m9.figshare.4572931.v1
title: Tableau 2. Marché bancaire. Répartition résidents/non-résidents (mds d'écus)

description: Données relatives à l'évolution du marché bancaire entre les résidents et les non-résidents. Source: Commission européenne.<br>
DOI: 10.6084/m9.figshare.4573021.v1
title: Dallas lifespan brain study anatomical segmentations

description: http://fcon_1000.projects.nitrc.org/indi/retro/dlbs.html segmentations for the anatomical images
DOI: 10.6084/m9.figshare.4573021.v2
title: Dallas lifespan brain study anatomical segmentations

description: http://fcon_1000.projects.nitrc.org/indi/retro/dlbs.html segmentations for the anatomical images<br>template in: template.zip p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 14.0px Menlo; background-color: #fef49c} span.s1 {font-variant-ligatures: no-common-ligatures} <br>Affine transformations to the template in file: toTemplateAffineMaps.zip p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 14.0px Menlo; background-color: #fef49c} span.s1 {font-variant-ligatures: no-common-ligatures}
DOI: 10.6084/m9.figshare.4572706
title: Chibby1 knockdown promotes mesenchymal-to-epithelial transition-like changes

description: Chibby1 (Cby1) was originally isolated as a binding partner for β-catenin, a dual function protein in cell-cell adhesion and in canonical Wnt signaling. The canonical Wnt/β-catenin pathway is dysregulated in various diseases including cancer, most notably of the gastrointestinal origin. To investigate the role of Cby1 in colorectal tumorigenesis, we generated stable Cby1-knockdown (K<sub>D</sub>) SW480 colon cancer cells. Unexpectedly, we found that Cby1 K<sub>D</sub> induces mesenchymal-to-epithelial transition (MET)-like changes in SW480 as well as in HEK293 cells. Cby1-K<sub>D</sub> cells displayed a cuboidal epithelial morphology with tight cell-cell contacts. In Cby1-K<sub>D</sub> cells, the plasma membrane localization of E-cadherin and β-catenin was dramatically increased with formation of cortical actin rings, while the levels of the mesenchymal marker vimentin were decreased. Consistent with these changes, in wound healing assays, Cby1-K<sub>D</sub> cells exhibited epithelial cell-like properties as they migrated collectively as epithelial sheets. Furthermore, the anchorage-independent growth of Cby1-K<sub>D</sub> cells was reduced as determined by soft agar assays. These findings suggest that chronic Cby1 K<sub>D</sub> in colon cancer cells may counteract tumor progression by promoting the MET process.
DOI: 10.6084/m9.figshare.4572706.v1
title: Chibby1 knockdown promotes mesenchymal-to-epithelial transition-like changes

description: Chibby1 (Cby1) was originally isolated as a binding partner for β-catenin, a dual function protein in cell-cell adhesion and in canonical Wnt signaling. The canonical Wnt/β-catenin pathway is dysregulated in various diseases including cancer, most notably of the gastrointestinal origin. To investigate the role of Cby1 in colorectal tumorigenesis, we generated stable Cby1-knockdown (K<sub>D</sub>) SW480 colon cancer cells. Unexpectedly, we found that Cby1 K<sub>D</sub> induces mesenchymal-to-epithelial transition (MET)-like changes in SW480 as well as in HEK293 cells. Cby1-K<sub>D</sub> cells displayed a cuboidal epithelial morphology with tight cell-cell contacts. In Cby1-K<sub>D</sub> cells, the plasma membrane localization of E-cadherin and β-catenin was dramatically increased with formation of cortical actin rings, while the levels of the mesenchymal marker vimentin were decreased. Consistent with these changes, in wound healing assays, Cby1-K<sub>D</sub> cells exhibited epithelial cell-like properties as they migrated collectively as epithelial sheets. Furthermore, the anchorage-independent growth of Cby1-K<sub>D</sub> cells was reduced as determined by soft agar assays. These findings suggest that chronic Cby1 K<sub>D</sub> in colon cancer cells may counteract tumor progression by promoting the MET process.
DOI: 10.6084/m9.figshare.4572685
title: Two-Level Orthogonal Screening Designs With 24, 28, 32, and 36 Runs

description: The potential of two-level orthogonal designs to fit models with main effects and two-factor interaction effects is commonly assessed through the correlation between contrast vectors involving these effects. We study the complete catalog of nonisomorphic orthogonal two-level 24-run designs involving 3–23 factors and we identify the best few designs in terms of these correlations. By modifying an existing enumeration algorithm, we identify the best few 28-run designs involving 3–14 factors and the best few 36-run designs in 3–18 factors as well. Based on a complete catalog of 7570 designs with 28 runs and 27 factors, we also seek good 28-run designs with more than 14 factors. Finally, starting from a unique 31-factor design in 32 runs that minimizes the maximum correlation among the contrast vectors for main effects and two-factor interactions, we obtain 32-run designs that have low values for this correlation. To demonstrate the added value of our work, we provide a detailed comparison of our designs to the alternatives available in the literature. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.4572685.v2
title: Two-Level Orthogonal Screening Designs With 24, 28, 32, and 36 Runs

description: The potential of two-level orthogonal designs to fit models with main effects and two-factor interaction effects is commonly assessed through the correlation between contrast vectors involving these effects. We study the complete catalog of nonisomorphic orthogonal two-level 24-run designs involving 3–23 factors and we identify the best few designs in terms of these correlations. By modifying an existing enumeration algorithm, we identify the best few 28-run designs involving 3–14 factors and the best few 36-run designs in 3–18 factors as well. Based on a complete catalog of 7570 designs with 28 runs and 27 factors, we also seek good 28-run designs with more than 14 factors. Finally, starting from a unique 31-factor design in 32 runs that minimizes the maximum correlation among the contrast vectors for main effects and two-factor interactions, we obtain 32-run designs that have low values for this correlation. To demonstrate the added value of our work, we provide a detailed comparison of our designs to the alternatives available in the literature. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.4572685.v1
title: Two-level orthogonal screening designs with 24, 28, 32 and 36 runs

description: The potential of two-level orthogonal designs to fit models with main effects and two-factor interaction effects is commonly assessed through the correlation between contrast vectors involving these effects. We study the complete catalog of non-isomorphic orthogonal two-level 24-run designs involving 3–23 factors and we identify the best few designs in terms of these correlations. By modifying an existing enumeration algorithm, we identify the best few 28-run designs involving 3–14 factors and the best few 36-run designs in 3–18 factors as well. Based on a complete catalog of 7570 designs with 28 runs and 27 factors, we also seek good 28-run designs with more than 14 factors. Finally, starting from a unique 31-factor design in 32 runs that minimizes the maximum correlation among the contrast vectors for main effects and two-factor interactions, we obtain 32-run designs that have low values for this correlation. To demonstrate the added value of our work, we provide a detailed comparison of our designs to the alternatives available in the literature.
DOI: 10.6084/m9.figshare.4572592
title: Force fields and MD systems for phosphorene in EMIM BF4

description: Force fields and MD systems for phosphorene in EMIM BF4<br><br><br>
DOI: 10.6084/m9.figshare.4572592.v1
title: Force fields and MD systems for phosphorene in EMIM BF4

description: Force fields and MD systems for phosphorene in EMIM BF4<br><br><br>
DOI: 10.6084/m9.figshare.4572553.v1
title: Canal Santamorena

description: Liga para performance de la primera formación de Santamorena, conformada por Niurka Curbelo y Alma Rosa Castellanos en el festival Village Tropical, en Suiza.<br> <br><br>
DOI: 10.6084/m9.figshare.4570429
title: DataArchive

description: Archive contains raw data, summarized data, and stimuli used in PNAS paper: Collins, Park, Berhmann 2017
DOI: 10.6084/m9.figshare.4570372
title: data_2013.txt

description: Capture Recapture dataset collected from an intensive monitoring of the marbled newt in a breeding pond located in wester France (Loire Atlantique), near the village of Vigneux de Bretagne. A total of 713 newts (412 males and 301 females) were marked over a breeding season in 2013.<br>
DOI: 10.6084/m9.figshare.4570372.v2
title: data_2013.txt

description: Capture Recapture dataset collected from an intensive monitoring of the marbled newt in a breeding pond located in wester France (Loire Atlantique), near the village of Vigneux de Bretagne. A total of 713 newts (412 males and 301 females) were marked over a breeding season in 2013.<br>
DOI: 10.6084/m9.figshare.4570297
title: Administrative unit population data for 150 countries and territories

description: File official-data.rar includes population data of second level administrative units, from offficial data sources, for Mexico (municipalities), Spain (provinces) and US (counties). It also includes population data for primary and secondary level administrative divisions and major cities for China and India.<br>File sau-data.rar includes population data for second level administrative units for 150 countries and territories. Data source is the Statoids data base, taken from statoids.com.<br>File world-population.rar includes population for countries territories from the UN and the World Bank.<br>All data updated up to january 2017.
DOI: 10.6084/m9.figshare.4570297.v1
title: Administrative unit population data for 150 countries and territories

description: File official-data.rar includes population data of second level administrative units, from offficial data sources, for Mexico (municipalities), Spain (provinces) and US (counties). It also includes population data for primary and secondary level administrative divisions and major cities for China and India.<br>File sau-data.rar includes population data for second level administrative units for 150 countries and territories. Data source is the Statoids data base, taken from statoids.com.<br>File world-population.rar includes population for countries territories from the UN and the World Bank.<br>All data updated up to january 2017.
DOI: 10.6084/m9.figshare.4570207
title: Potential epigenetic biomarkers of obesity-related insulin resistance in human whole-blood

description: Obesity can increase the risk of complex metabolic diseases, including insulin resistance. Moreover, obesity can be caused by environmental and genetic factors. However, the epigenetic mechanisms of obesity are not well defined. Therefore, the identification of novel epigenetic biomarkers of obesity allows for a more complete understanding of the disease and its underlying insulin resistance. The aim of our study was to identify DNA methylation changes in whole-blood that were strongly associated with obesity and insulin resistance. Whole-blood was obtained from lean (n = 10; BMI = 23.6 ± 0.7 kg/m<sup>2</sup>) and obese (n = 10; BMI = 34.4 ± 1.3 kg/m<sup>2</sup>) participants in combination with euglycemic hyperinsulinemic clamps to assess insulin sensitivity. We performed reduced representation bisulfite sequencing on genomic DNA isolated from the blood. We identified 49 differentially methylated cytosines (DMCs; q &lt; 0.05) that were altered in obese compared with lean participants. We identified 2 sites (Chr.21:46,957,981 and Chr.21:46,957,915) in the 5’ untranslated region of solute carrier family 19 member 1 (<i>SLC19A1</i>) with decreased methylation in obese participants (lean 0.73 ± 0.11 vs. obese 0.09 ± 0.05; lean 0.68 ± 0.10 vs. obese 0.09 ± 0.05, respectively). These 2 DMCs identified by obesity were also significantly predicted by insulin sensitivity (r = 0.68, <i>P = 0.003</i>; r = 0.66; <i>P = 0.004</i>). In addition, we performed a differentially methylated region (DMR) analysis and demonstrated a decrease in methylation of Chr.21:46,957,915–46,958,001 in <i>SLC19A1</i> of −34.9% (70.4% lean vs. 35.5% obese). The decrease in whole-blood <i>SLC19A1</i> methylation in our obese participants was similar to the change observed in skeletal muscle (Chr.21:46,957,981, lean 0.70 ± 0.09 vs. obese 0.31 ± 0.11 and Chr.21:46,957,915, lean 0.72 ± 0.11 vs. obese 0.31 ± 0.13). Pyrosequencing analysis further demonstrated a decrease in methylation at Chr.21:46,957,915 in both whole-blood (lean 0.71 ± 0.10 vs. obese 0.18 ± 0.06) and skeletal muscle (lean 0.71 ± 0.10 vs. obese 0.30 ± 0.11). Our findings demonstrate a new potential epigenetic biomarker, <i>SLC19A1</i>, for obesity and its underlying insulin resistance.
DOI: 10.6084/m9.figshare.4570207.v2
title: Potential epigenetic biomarkers of obesity-related insulin resistance in human whole-blood

description: Obesity can increase the risk of complex metabolic diseases, including insulin resistance. Moreover, obesity can be caused by environmental and genetic factors. However, the epigenetic mechanisms of obesity are not well defined. Therefore, the identification of novel epigenetic biomarkers of obesity allows for a more complete understanding of the disease and its underlying insulin resistance. The aim of our study was to identify DNA methylation changes in whole-blood that were strongly associated with obesity and insulin resistance. Whole-blood was obtained from lean (n = 10; BMI = 23.6 ± 0.7 kg/m<sup>2</sup>) and obese (n = 10; BMI = 34.4 ± 1.3 kg/m<sup>2</sup>) participants in combination with euglycemic hyperinsulinemic clamps to assess insulin sensitivity. We performed reduced representation bisulfite sequencing on genomic DNA isolated from the blood. We identified 49 differentially methylated cytosines (DMCs; q &lt; 0.05) that were altered in obese compared with lean participants. We identified 2 sites (Chr.21:46,957,981 and Chr.21:46,957,915) in the 5’ untranslated region of solute carrier family 19 member 1 (<i>SLC19A1</i>) with decreased methylation in obese participants (lean 0.73 ± 0.11 vs. obese 0.09 ± 0.05; lean 0.68 ± 0.10 vs. obese 0.09 ± 0.05, respectively). These 2 DMCs identified by obesity were also significantly predicted by insulin sensitivity (r = 0.68, <i>P = 0.003</i>; r = 0.66; <i>P = 0.004</i>). In addition, we performed a differentially methylated region (DMR) analysis and demonstrated a decrease in methylation of Chr.21:46,957,915–46,958,001 in <i>SLC19A1</i> of −34.9% (70.4% lean vs. 35.5% obese). The decrease in whole-blood <i>SLC19A1</i> methylation in our obese participants was similar to the change observed in skeletal muscle (Chr.21:46,957,981, lean 0.70 ± 0.09 vs. obese 0.31 ± 0.11 and Chr.21:46,957,915, lean 0.72 ± 0.11 vs. obese 0.31 ± 0.13). Pyrosequencing analysis further demonstrated a decrease in methylation at Chr.21:46,957,915 in both whole-blood (lean 0.71 ± 0.10 vs. obese 0.18 ± 0.06) and skeletal muscle (lean 0.71 ± 0.10 vs. obese 0.30 ± 0.11). Our findings demonstrate a new potential epigenetic biomarker, <i>SLC19A1</i>, for obesity and its underlying insulin resistance.