cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5769375
title: Supplementary Material for: Visual Outcomes Based on Early Response to Anti-Vascular Endothelial Growth Factor Treatment for Diabetic Macular Edema

description: <b><i>Objective:</i></b> To examine the relationship between early response to anti-vascular endothelial growth factor (VEGF) treatment and visual prognosis. <b><i>Methods:</i></b> We retrospectively separated 20 patients with persistent diabetic macular edema (DME) into two responder status groups based on the reduction of central macular thickness (CMT) from baseline to month 3: a delayed responder group (DRG) (≤25% CMT reduction, <i>n</i> = 11) and an immediate responder group (IRG) (&gt;25% CMT reduction, <i>n</i> = 14). We also separated the patients into two responder status groups based on the logarithm of the minimum angle of resolution (logMAR) best-corrected visual acuity (BCVA): a visual nonimprovement group (VNIG) (≥0 logMAR BCVA improvement, <i>n</i> = 11) and a vi sual improvement group (VIG) (&lt;0 logMAR BCVA improvement, <i>n</i> = 14). Finally, we assessed the correlations between logMAR BCVA changes from baseline to month 3 (ΔBCVA<sub>M3</sub>) and those from baseline to month 12 (ΔBCVA<sub>M12</sub>). <b><i>Results:</i></b> At month 12, BCVA was significantly more improved in the VIG than the VNIG (<i>p</i> &lt; 0.005), but was not significantly different between the DRG and the IRG (<i>p</i> = 0.75). The Pearson correlation coefficient showed a significant relationship between ΔBCVA<sub>M3</sub> and ΔBCVA<sub>M12</sub> (<i>r</i> = 0.60, <i>p</i> &lt; 0.005). <b><i>Conclusions:</i></b> BCVA showed significantly greater improvement in the VIG than in the VNIG. ΔBCVA<sub>M3</sub> may predict the visual outcome at month 12 in DME patients treated with anti-VEGF drugs.
DOI: 10.6084/m9.figshare.5769375.v1
title: Supplementary Material for: Visual Outcomes Based on Early Response to Anti-Vascular Endothelial Growth Factor Treatment for Diabetic Macular Edema

description: <b><i>Objective:</i></b> To examine the relationship between early response to anti-vascular endothelial growth factor (VEGF) treatment and visual prognosis. <b><i>Methods:</i></b> We retrospectively separated 20 patients with persistent diabetic macular edema (DME) into two responder status groups based on the reduction of central macular thickness (CMT) from baseline to month 3: a delayed responder group (DRG) (≤25% CMT reduction, <i>n</i> = 11) and an immediate responder group (IRG) (&gt;25% CMT reduction, <i>n</i> = 14). We also separated the patients into two responder status groups based on the logarithm of the minimum angle of resolution (logMAR) best-corrected visual acuity (BCVA): a visual nonimprovement group (VNIG) (≥0 logMAR BCVA improvement, <i>n</i> = 11) and a vi sual improvement group (VIG) (&lt;0 logMAR BCVA improvement, <i>n</i> = 14). Finally, we assessed the correlations between logMAR BCVA changes from baseline to month 3 (ΔBCVA<sub>M3</sub>) and those from baseline to month 12 (ΔBCVA<sub>M12</sub>). <b><i>Results:</i></b> At month 12, BCVA was significantly more improved in the VIG than the VNIG (<i>p</i> &lt; 0.005), but was not significantly different between the DRG and the IRG (<i>p</i> = 0.75). The Pearson correlation coefficient showed a significant relationship between ΔBCVA<sub>M3</sub> and ΔBCVA<sub>M12</sub> (<i>r</i> = 0.60, <i>p</i> &lt; 0.005). <b><i>Conclusions:</i></b> BCVA showed significantly greater improvement in the VIG than in the VNIG. ΔBCVA<sub>M3</sub> may predict the visual outcome at month 12 in DME patients treated with anti-VEGF drugs.
DOI: 10.6084/m9.figshare.5769372
title: Raw Data Human Fovea Collimated Light

description: Results of light transmission measurement of 3 human retinae (foveal area) <br>
DOI: 10.6084/m9.figshare.5769372.v1
title: Raw Data Human Fovea Collimated Light

description: Results of light transmission measurement of 3 human retinae (foveal area) <br>
DOI: 10.6084/m9.figshare.5769369
title: Supplementary Material for: The Vertical Array Reconstruction Technique in Pylorus-Preserving Pancreatoduodenectomy

description: <b><i>Background/Aims:</i></b> We describe a new reconstruction method of duodenojejunal anastomosis, the “vertical array reconstruction” (VAR) technique, following pylorus-preserving pancreatoduodenectomy (PPPD). <b><i>Methods:</i></b> The VAR technique aligns the stomach, duodenum, and jejunal loop vertically along the body’s longitudinal axis. It was performed in 120 consecutive patients (between June 2008 and October 2015) who underwent PPPD. We evaluated the incidence of delayed gastric emptying (DGE). <b><i>Results:</i></b> The incidence of DGE was 1.7% (<i>n</i> = 2). The proposed clinical grading classified these 2 cases of DGE as grade B. There was no DGE related to pancreatic fistula. The median duration to starting a solid diet was 3 days (range 3–5 days). The median operative time was 450 min (range 391–550 min). <b><i>Conclusion:</i></b> The VAR technique allows the upper digestive tract to be aligned linearly and can minimize the risk of DGE after PPPD.
DOI: 10.6084/m9.figshare.5769369.v1
title: Supplementary Material for: The Vertical Array Reconstruction Technique in Pylorus-Preserving Pancreatoduodenectomy

description: <b><i>Background/Aims:</i></b> We describe a new reconstruction method of duodenojejunal anastomosis, the “vertical array reconstruction” (VAR) technique, following pylorus-preserving pancreatoduodenectomy (PPPD). <b><i>Methods:</i></b> The VAR technique aligns the stomach, duodenum, and jejunal loop vertically along the body’s longitudinal axis. It was performed in 120 consecutive patients (between June 2008 and October 2015) who underwent PPPD. We evaluated the incidence of delayed gastric emptying (DGE). <b><i>Results:</i></b> The incidence of DGE was 1.7% (<i>n</i> = 2). The proposed clinical grading classified these 2 cases of DGE as grade B. There was no DGE related to pancreatic fistula. The median duration to starting a solid diet was 3 days (range 3–5 days). The median operative time was 450 min (range 391–550 min). <b><i>Conclusion:</i></b> The VAR technique allows the upper digestive tract to be aligned linearly and can minimize the risk of DGE after PPPD.
DOI: 10.6084/m9.figshare.5769369.v2
title: Supplementary Material for: The Vertical Array Reconstruction Technique in Pylorus-Preserving Pancreatoduodenectomy

description: <b><i>Background/Aims:</i></b> We describe a new reconstruction method of duodenojejunal anastomosis, the “vertical array reconstruction” (VAR) technique, following pylorus-preserving pancreatoduodenectomy (PPPD). <b><i>Methods:</i></b> The VAR technique aligns the stomach, duodenum, and jejunal loop vertically along the body’s longitudinal axis. It was performed in 120 consecutive patients (between June 2008 and October 2015) who underwent PPPD. We evaluated the incidence of delayed gastric emptying (DGE). <b><i>Results:</i></b> The incidence of DGE was 1.7% (<i>n</i> = 2). The proposed clinical grading classified these 2 cases of DGE as grade B. There was no DGE related to pancreatic fistula. The median duration to starting a solid diet was 3 days (range 3–5 days). The median operative time was 450 min (range 391–550 min). <b><i>Conclusion:</i></b> The VAR technique allows the upper digestive tract to be aligned linearly and can minimize the risk of DGE after PPPD.
DOI: 10.6084/m9.figshare.5769369.v3
title: Supplementary Material for: The Vertical Array Reconstruction Technique in Pylorus-Preserving Pancreatoduodenectomy

description: <b><i>Background/Aims:</i></b> We describe a new reconstruction method of duodenojejunal anastomosis, the “vertical array reconstruction” (VAR) technique, following pylorus-preserving pancreatoduodenectomy (PPPD). <b><i>Methods:</i></b> The VAR technique aligns the stomach, duodenum, and jejunal loop vertically along the body’s longitudinal axis. It was performed in 120 consecutive patients (between June 2008 and October 2015) who underwent PPPD. We evaluated the incidence of delayed gastric emptying (DGE). <b><i>Results:</i></b> The incidence of DGE was 1.7% (<i>n</i> = 2). The proposed clinical grading classified these 2 cases of DGE as grade B. There was no DGE related to pancreatic fistula. The median duration to starting a solid diet was 3 days (range 3–5 days). The median operative time was 450 min (range 391–550 min). <b><i>Conclusion:</i></b> The VAR technique allows the upper digestive tract to be aligned linearly and can minimize the risk of DGE after PPPD.
DOI: 10.6084/m9.figshare.5769369.v4
title: Supplementary Material for: The Vertical Array Reconstruction Technique in Pylorus-Preserving Pancreatoduodenectomy

description: <b><i>Background/Aims:</i></b> We describe a new reconstruction method of duodenojejunal anastomosis, the “vertical array reconstruction” (VAR) technique, following pylorus-preserving pancreatoduodenectomy (PPPD). <b><i>Methods:</i></b> The VAR technique aligns the stomach, duodenum, and jejunal loop vertically along the body’s longitudinal axis. It was performed in 120 consecutive patients (between June 2008 and October 2015) who underwent PPPD. We evaluated the incidence of delayed gastric emptying (DGE). <b><i>Results:</i></b> The incidence of DGE was 1.7% (<i>n</i> = 2). The proposed clinical grading classified these 2 cases of DGE as grade B. There was no DGE related to pancreatic fistula. The median duration to starting a solid diet was 3 days (range 3–5 days). The median operative time was 450 min (range 391–550 min). <b><i>Conclusion:</i></b> The VAR technique allows the upper digestive tract to be aligned linearly and can minimize the risk of DGE after PPPD.
DOI: 10.6084/m9.figshare.5769366
title: Raw Data Human Fovea

description: Multiple microscopic images (X620) used to make a 3D model and video showing the anatomy of the foveolar cells<br>
DOI: 10.6084/m9.figshare.5769360
title: Data for_Larval exposure to the imidacloprid impacts adult size in Pieris brassicae.xlsx

description: Raw data for the experiment 'Larval exposure to the neonicotinoid imidacloprid impacts adult size in the farmland butterfly Pieris brassicae'
DOI: 10.6084/m9.figshare.5769345
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v1
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v2
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v4
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v5
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v6
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v7
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v8
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v9
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v10
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769345.v11
title: Heatwave duration

description: Data and R-code (R markdown script) used in the analysis of heatwave duration in India during February-April and minimum temperatures in winter (December-February). <br>
DOI: 10.6084/m9.figshare.5769312
title: dbpedia_2016_10-pageRanks.hdt

description: This datasets contains the PageRank scores computed over the RDF graph using PageRankRDF (https://github.com/WDAqua/PageRankRDF) of DBpedia in HDT format (http://www.rdfhdt.org).
DOI: 10.6084/m9.figshare.5769312.v2
title: dbpedia_2016_10-pageRanks.hdt

description: This datasets contains the PageRank scores computed over the RDF graph using PageRankRDF (https://github.com/WDAqua/PageRankRDF) of DBpedia in HDT format (http://www.rdfhdt.org).
DOI: 10.6084/m9.figshare.5769312.v1
title: dbpedia_2016_10-pageRanks.hdt

description: This datasets contains the PageRank scores computed over the RDF graph using PageRankRDF (https://github.com/WDAqua/PageRankRDF) of DBpedia in HDT format (http://www.rdfhdt.org).
DOI: 10.6084/m9.figshare.5769291
title: ULK1 phosphorylates Ser30 of BECN1 in association with ATG14 to stimulate autophagy induction

description: ULK1 (unc51-like autophagy activating kinase 1) is a serine/threonine kinase that plays a key role in regulating macroautophagy/autophagy induction in response to amino acid starvation. Despite the recent progress in understanding ULK1 functions, the molecular mechanism by which ULK1 regulates the induction of autophagy remains elusive. In this study, we determined that ULK1 phosphorylates Ser30 of BECN1 (Beclin 1) in association with ATG14 (autophagy-related 14) but not with UVRAG (UV radiation resistance associated). The Ser30 phosphorylation was induced by deprivation of amino acids or treatments with Torin 1 or rapamycin, the conditions that inhibit MTORC1 (mechanistic target of rapamycin complex 1), and requires ATG13 and RB1CC1 (RB1 inducible coiled-coil 1), proteins that interact with ULK1. Hypoxia or glutamine deprivation, which inhibit MTORC1, was also able to increase the phosphorylation in a manner dependent upon ULK1 and ULK2. Blocking the BECN1 phosphorylation by replacing Ser30 with alanine suppressed the amino acid starvation-induced activation of the ATG14-containing PIK3C3/VPS34 (phosphatidylinositol 3-kinase catalytic subunit type 3) kinase, and reduced autophagy flux and the formation of phagophores and autophagosomes. The Ser30-to-Ala mutation did not affect the ULK1-mediated phosphorylations of BECN1 Ser15 or ATG14 Ser29, indicating that the BECN1 Ser30 phosphorylation might regulate autophagy independently of those 2 sites. Taken together, these results demonstrate that BECN1 Ser30 is a ULK1 target site whose phosphorylation activates the ATG14-containing PIK3C3 complex and stimulates autophagosome formation in response to amino acid starvation, hypoxia, and MTORC1 inhibition.
DOI: 10.6084/m9.figshare.5769291.v2
title: ULK1 phosphorylates Ser30 of BECN1 in association with ATG14 to stimulate autophagy induction

description: ULK1 (unc51-like autophagy activating kinase 1) is a serine/threonine kinase that plays a key role in regulating macroautophagy/autophagy induction in response to amino acid starvation. Despite the recent progress in understanding ULK1 functions, the molecular mechanism by which ULK1 regulates the induction of autophagy remains elusive. In this study, we determined that ULK1 phosphorylates Ser30 of BECN1 (Beclin 1) in association with ATG14 (autophagy-related 14) but not with UVRAG (UV radiation resistance associated). The Ser30 phosphorylation was induced by deprivation of amino acids or treatments with Torin 1 or rapamycin, the conditions that inhibit MTORC1 (mechanistic target of rapamycin complex 1), and requires ATG13 and RB1CC1 (RB1 inducible coiled-coil 1), proteins that interact with ULK1. Hypoxia or glutamine deprivation, which inhibit MTORC1, was also able to increase the phosphorylation in a manner dependent upon ULK1 and ULK2. Blocking the BECN1 phosphorylation by replacing Ser30 with alanine suppressed the amino acid starvation-induced activation of the ATG14-containing PIK3C3/VPS34 (phosphatidylinositol 3-kinase catalytic subunit type 3) kinase, and reduced autophagy flux and the formation of phagophores and autophagosomes. The Ser30-to-Ala mutation did not affect the ULK1-mediated phosphorylations of BECN1 Ser15 or ATG14 Ser29, indicating that the BECN1 Ser30 phosphorylation might regulate autophagy independently of those 2 sites. Taken together, these results demonstrate that BECN1 Ser30 is a ULK1 target site whose phosphorylation activates the ATG14-containing PIK3C3 complex and stimulates autophagosome formation in response to amino acid starvation, hypoxia, and MTORC1 inhibition.
DOI: 10.6084/m9.figshare.5769291.v1
title: ULK1 phosphorylates Ser30 of BECN1 in association with ATG14 to stimulate autophagy induction

description: ULK1 (unc51-like autophagy activating kinase 1) is a serine/threonine kinase that plays a key role in regulating macroautophagy/autophagy induction in response to amino acid starvation. Despite the recent progress in understanding ULK1 functions, the molecular mechanism by which ULK1 regulates the induction of autophagy remains elusive. In this study, we determined that ULK1 phosphorylates Ser30 of BECN1 (beclin 1) in association with ATG14 (autophagy related 14) but not with UVRAG (UV radiation resistance associated). The Ser30 phosphorylation was induced by deprivation of amino acids or treatments with Torin 1 or rapamycin, the conditions that inhibit MTORC1 (mechanistic target of rapamycin complex 1), and requires ATG13 and RB1CC1 (RB1 inducible coiled-coil 1), proteins that interact with ULK1. Hypoxia or glutamine deprivation, which inhibit MTORC1, was also able to increase the phosphorylation in a manner dependent upon ULK1 and ULK2. Blocking the BECN1 phosphorylation by replacing Ser30 with alanine suppressed the amino acid starvation-induced activation of the ATG14-containing PIK3C3/VPS34 (phosphatidylinositol 3-kinase catalytic subunit type 3) kinase, and reduced autophagy flux and the formation of phagophores and autophagosomes. The Ser30-to-Ala mutation did not affect the ULK1-mediated phosphorylations of BECN1 Ser15 or ATG14 Ser29, indicating that the BECN1 Ser30 phosphorylation might regulate autophagy independently of those 2 sites. Taken together, these results demonstrate that BECN1 Ser30 is a ULK1 target site whose phosphorylation activates the ATG14-containing PIK3C3 complex and stimulates autophagosome formation in response to amino acid starvation, hypoxia, and MTORC1 inhibition.
DOI: 10.6084/m9.figshare.5769231
title: Raw data uploaded on Dryad from Silver nanoparticles as a medical device in healthcare settings: a five-step approach for candidate screening of coating agents

description: Raw data supporting Figures and data presented, uploaded on Dryad and Trinity College Tara archive
DOI: 10.6084/m9.figshare.5769231.v1
title: Raw data uploaded on Dryad from Silver nanoparticles as a medical device in healthcare settings: a five-step approach for candidate screening of coating agents

description: Raw data supporting Figures and data presented, uploaded on Dryad and Trinity College Tara archive
DOI: 10.6084/m9.figshare.5769201
title: springernature-scigraph.2017-11-07-PageRank.hdt

description: This datasets contains the PageRank scores computed over the RDF graph using PageRankRDF (https://github.com/WDAqua/PageRankRDF) of the Scigraph (http://scigraph.springernature.com/) in HDT format (http://www.rdfhdt.org).
DOI: 10.6084/m9.figshare.5769201.v1
title: springernature-scigraph.2017-11-07-PageRank.hdt

description: This datasets contains the PageRank scores computed over the RDF graph using PageRankRDF (https://github.com/WDAqua/PageRankRDF) of the Scigraph (http://scigraph.springernature.com/) in HDT format (http://www.rdfhdt.org).
DOI: 10.6084/m9.figshare.5769198
title: Supplementary Material for: Tuberculosis-Associated Chylothorax: Case Report and Systematic Review of the Literature

description: Tuberculosis (TB) is a rare cause of chylothorax. We describe a case and the results of a systematic review of all reported cases of TB-chylothorax. We identified 37 cases of TB-chylothorax. The symptoms at presentation were constitutional (85.7%; 30/35), dyspnea (60.6%; 20/33), and cough (54.5%; 18/33). Chylothorax developed subsequent to the diagnosis of TB in 27.8% (10/36) of the patients, after a median of 6.75 weeks (IQR 4–9). Chylothorax developed during an immune reconstitution syndrome (IRS) in 16.7% (10/36) of the patients, including immunocompetent ones. TB was disseminated in 45.9% (17/37) of the patients at the diagnosis of chylothorax. Chylothorax developed in the absence of any mediastinal lymphadenopathy in 45.9% (17/37) of the patients; 13.5% (5/37) had isolated tubercular empyema alone. The diagnosis of TB was established microbiologically in 72.2% (26/36) and by biopsy alone in 27.8% (9/36) of the patients. Anti-TB treatment (ATT) was administered for a median of 7.57 months (IQR 6–9). Steroids were administered to 22.9% (8/35) of the patients, often for suspected IRS. Thoracic duct ligation and octreotide were required for only 17.1% (6/35) and 8.6% (3/35) of the patients, respectively. In all, 94.4% (34/36) of the patients had resolution of chylothorax and completed treatment successfully; only 5.6% (2/36) died. In conclusion, TB-chylothorax may develop without obvious mediastinal lymphadenopathy and be associated with tubercular empyema alone. TB-chylothorax can develop during treatment of TB due to IRS, even in immunocompetent patients. ATT and dietary manipulation are associated with good resolution and low mortality, and duct ligation is needed for only a small minority of patients.
DOI: 10.6084/m9.figshare.5769189
title: MusicBrainz201612-PageRank.hdt

description: This datasets contains the PageRank scores computed over the RDF graph using PageRankRDF (https://github.com/WDAqua/PageRankRDF) of the MusicBrainz dump (https://github.com/LinkedBrainz/MusicBrainz-R2RML) in HDT format (http://www.rdfhdt.org).
DOI: 10.6084/m9.figshare.5769180
title: Climate mediates the biodiversity-ecosystem stability relationship globally

description: These data correspond to a study looking at the biodiversity-ecosystem stability relationship in global drylands. To do that, we merge satellite-based estimations of aboveground biomass (NDVI, 2000-2013), climatic dataset (FetchClimate) and a global field survey of plant diversity and functional traits.<br>
DOI: 10.6084/m9.figshare.5769150
title: TOF-SIMS analysis of massive sulfide unit in Tharsis (Iberian Pyrite Belt)

description: Mass spectra and TOF-SIM imaging showing distribution of positive and negative ions from the analysis of a sample collected in the massive sulfide of Tharsis (Iberian Pyrite Belt). The analysis interpretation is published in the paper 2017JG004144 "Productivity contribution of Paleozoic woodlands to the formation of shale hosted massive sulfide deposits in the Iberian Pyrite Belt (Tharsis, Spain)" in the Journal Geophysical Research-Biogeosciences. Mass spectra data is formated to text files in two columns that correspond to mass and total intensity, respectively. TOF-SIMS imaging are bmp files of two different areas that have been explored.