cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/123370
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1530 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.7745876
title: Supplementary Material for: Big Data Research in Pediatric Neurosurgery: Content, Statistical Output, and Bibliometric Analysis

description: <b><i>Background/Aims:</i></b> We sought to describe pediatric “big data” publications since 2000, their statistical output, and clinical implications. <b><i>Methods:</i></b> We searched 4 major North American neurosurgical journals for articles utilizing non-neurosurgery-specific databases for clinical pediatric neurosurgery research. Articles were analyzed for descriptive and statistical information. We analyzed effect sizes (ESs), confidence intervals (CIs), and <i>p</i> values for clinical relevance. A bibliometric analysis was performed using several key citation metrics. <b><i>Results:</i></b> We identified 74 articles, which constituted 1.7% of all pediatric articles (<i>n</i> = 4,436) published, with an exponential increase after 2013 (53/74, 72%). The Healthcare Cost and Utilization Project (HCUP) databases were most frequently utilized (<i>n</i> = 33); hydrocephalus (<i>n</i> = 19) was the most common study topic. The statistical output (<i>n</i> = 49 studies with 464 ESs, 456 CIs, and 389 <i>p</i> values) demonstrated that the majority of the ESs (253/464, 55%) were categorized as small; half or more of the CI spread (CIS) values and <i>p</i> values were high (274/456, 60%) and very strong (195/389, 50%), respectively. Associations with a combination of medium-to-large ESs (i.e., magnitude of difference), medium-to-high CISs (i.e., precision), and strong-to-very strong <i>p</i> values comprised only 20% (75/381) of the reported ESs. The total number of citations for the 74 articles was 1,115 (range per article, 0–129), with the median number of citations per article being 8.5. Four studies had &gt; 50 citations, and 2 of them had &gt; 100 citations. The calculated <i>h</i>-index was 16, <i>h</i>-core citations were 718, the <i>e</i>-index was 21.5, and the Google i10-index was 34. <b><i>Conclusions:</i></b> There has been a dramatic increase in the use of “big data” in the pediatric neurosurgical literature. Reported associations that may, as a group, be of greatest interest to practitioners represented only 20% of the total output from these publications. Citations were weighted towards a few highly cited publications.
DOI: 10.6084/m9.figshare.7745876.v1
title: Supplementary Material for: Big Data Research in Pediatric Neurosurgery: Content, Statistical Output, and Bibliometric Analysis

description: <b><i>Background/Aims:</i></b> We sought to describe pediatric “big data” publications since 2000, their statistical output, and clinical implications. <b><i>Methods:</i></b> We searched 4 major North American neurosurgical journals for articles utilizing non-neurosurgery-specific databases for clinical pediatric neurosurgery research. Articles were analyzed for descriptive and statistical information. We analyzed effect sizes (ESs), confidence intervals (CIs), and <i>p</i> values for clinical relevance. A bibliometric analysis was performed using several key citation metrics. <b><i>Results:</i></b> We identified 74 articles, which constituted 1.7% of all pediatric articles (<i>n</i> = 4,436) published, with an exponential increase after 2013 (53/74, 72%). The Healthcare Cost and Utilization Project (HCUP) databases were most frequently utilized (<i>n</i> = 33); hydrocephalus (<i>n</i> = 19) was the most common study topic. The statistical output (<i>n</i> = 49 studies with 464 ESs, 456 CIs, and 389 <i>p</i> values) demonstrated that the majority of the ESs (253/464, 55%) were categorized as small; half or more of the CI spread (CIS) values and <i>p</i> values were high (274/456, 60%) and very strong (195/389, 50%), respectively. Associations with a combination of medium-to-large ESs (i.e., magnitude of difference), medium-to-high CISs (i.e., precision), and strong-to-very strong <i>p</i> values comprised only 20% (75/381) of the reported ESs. The total number of citations for the 74 articles was 1,115 (range per article, 0–129), with the median number of citations per article being 8.5. Four studies had &gt; 50 citations, and 2 of them had &gt; 100 citations. The calculated <i>h</i>-index was 16, <i>h</i>-core citations were 718, the <i>e</i>-index was 21.5, and the Google i10-index was 34. <b><i>Conclusions:</i></b> There has been a dramatic increase in the use of “big data” in the pediatric neurosurgical literature. Reported associations that may, as a group, be of greatest interest to practitioners represented only 20% of the total output from these publications. Citations were weighted towards a few highly cited publications.
DOI: 10.7284/123372
title: Fluorometer data collected during research cruise AE1530 using a Turner 10-AU instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/123369
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1530 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.7745780
title: Supplementary Material for: Coxsackievirus B Tailors the Unfolded Protein Response to Favour Viral Amplification in Pancreatic β Cells

description: Type 1 diabetes (T1D) is an autoimmune disease characterized by islet inflammation and progressive pancreatic β cell destruction. The disease is triggered by a combination of genetic and environmental factors, but the mechanisms leading to the triggering of early innate and late adaptive immunity and consequent progressive pancreatic β cell death remain unclear. The insulin-producing β cells are active secretory cells and are thus particularly sensitive to endoplasmic reticulum (ER) stress. ER stress plays an important role in the pathologic pathway leading to autoimmunity, islet inflammation, and β cell death. We show here that group B coxsackievirus (CVB) infection, a putative causative factor for T1D, induces a partial ER stress in rat and human β cells. The activation of the PERK/ATF4/CHOP branch is blunted while the IRE1α branch leads to increased spliced XBP1 expression and c-Jun N-terminal kinase (JNK) activation. Interestingly, JNK1 activation is essential for CVB amplification in both human and rat β cells. Furthermore, a chemically induced ER stress preceding viral infection increases viral replication, in a process dependent on IRE1α activation. Our findings show that CVB tailors the unfolded protein response in β cells to support their replication, preferentially triggering the pro-viral IRE1α/XBP1s/JNK1 pathway while blocking the pro-apoptotic PERK/ATF4/CHOP pathway.
DOI: 10.7284/123368
title: Singlebeam Echosounder data collected during research cruise AE1530 using a Knudsen 3260 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7745747
title: Supplementary Material for: Genotype-Clinical Correlations in Polycystic Kidney Disease with No Apparent Family History

description: <b><i>Background:</i></b> Genetic characteristics of polycystic kidney disease (PKD) patients without apparent family history were reported to be different from those with a positive family history. However, the clinical course of PKD patients with no apparent family history is not well documented in the literature. <b><i>Methods:</i></b> We evaluated the relationship between genotype and the clinical course of 62 PKD patients with no apparent family history. <b><i>Results:</i></b> The annual decline of renal function was faster in the patients with <i>PKD1</i>/<i>PKD2</i> mutation (<i>PKD1</i> truncating [–3.08; 95% CI –5.30 to –0.87, <i>p</i> = 0.007], <i>PKD1</i> nontruncating [–2.10; –3.82 to –0.38, <i>p</i> = 0.02], and <i>PKD2</i> [–2.31; –4.40 to –0.23, <i>p</i> = 0.03]) than in the other patients without <i>PKD1</i>/<i>PKD2</i> mutation. Similar results were obtained after adjustment for gender, age, estimated glomerular filtration rate (eGFR), height-adjusted total kidney volume (TKV), and mean arterial pressure (MAP). There was no significant difference in the annual decline of renal function among the different <i>PKD1</i>/<i>PKD2</i> groups, but Kaplan-Meier analysis showed that progression to eGFR &lt; 15 mL/min/1.73 m<sup>2</sup> was significantly faster in <i>PKD1</i> truncating group (<i>p</i> = 0.05). The annual rate of TKV increase was larger in the patients with <i>PKD1</i>/<i>PKD2</i> mutation (<i>PKD1</i> truncating [4.63; 95% CI 0.62–8.64, <i>p</i> = 0.03], <i>PKD1</i> nontruncating [3.79; 0.55–7.03, <i>p</i> = 0.02], and <i>PKD2</i> [2.11; –1.90 to 6.12, <i>p</i> = 0.29]) than in the other patients without <i>PKD1</i>/<i>PKD2</i> mutation. Similar results were obtained after adjustment for gender, age, eGFR, and MAP. <b><i>Conclusion:</i></b> Detection of <i>PKD1</i>/<i>PKD2</i> mutation, especially <i>PKD1</i> truncating, is useful for predicting the renal outcome and rate of TKV increase in PKD patients with no apparent family history.
DOI: 10.6084/m9.figshare.7745735
title: Supplementary Material for: Adherence to Kidney Disease: Improving Global Outcomes Mineral and Bone Guidelines for Monitoring Biochemical Parameters

description: <b><i>Background:</i></b> Mineral and bone disorder (MBD) is common in patients with chronic kidney disease (CKD), and is associated with risk of fractures, cardiovascular disease, and death. Kidney Disease: Improving Global Outcomes (KDIGO) guidelines recommend monitoring CKD-MBD biochemical markers, including parathyroid hormone (PTH), phosphorus, 25-hydroxyvitamin D (25D), calcium, and alkaline phosphatase (ALP), in patients with moderate-to-severe CKD. <b><i>Methods:</i></b> To determine guideline adherence, we used administrative claims records from the 20% sample of Medicare beneficiaries with Parts A, B, and D coverage, 2007 to 2015, and identified cohorts of patients with nondialysis stage 3, 4, or 5 CKD. Testing for biochemical markers during follow-up was defined based on laboratory procedure codes. Baseline factors associated with laboratory testing were determined using logistic regression. All analyses were performed separately by CKD stage. <b><i>Results:</i></b> A total of 640,946 stage 3, 136,278 stage 4, and 22,076 stage 5 CKD patients, 50.2–52.9% women, mean age 74.4–78.0 years, were followed for a mean of 2.5, 1.3, and 0.7 years respectively. The frequency of testing was low for PTH (35.2–48.2%), phosphorus (46.6–62.0%), and 25D (29.3–46.7%). Testing was somewhat higher for calcium (88.1–95.4%) and ALP (63.5–88.1%); most tests were features of larger panels (e.g., basic metabolic panel). Older age, most comorbid conditions, and lack of prior nephrology care were associated with lower likelihood of testing. <b><i>Conclusions:</i></b> In fee-for-service Medicare beneficiaries, laboratory testing for CKD-MBD biochemical markers appears to be suboptimal in relation to KDIGO guidelines. Competing priories, such as management of comorbid disease and preparation for renal replacement therapy, may distract from CKD-MBD monitoring.
DOI: 10.6084/m9.figshare.7745738
title: Analysis of lipid droplet content in fission and budding yeasts using automated image processing (reproducibility package)

description: Reproducibility package for article "Analysis of lipid droplets in fission and budding yeasts using automated image processing" (citation pending).Contains:- all input raw image data for S. pombe, S. japonicus and S. cerevisiae- MATLAB scripts for image processing- processed data (segmented images, CSV quantifications) - R scripts for data analysis and visualization.
DOI: 10.6084/m9.figshare.7745747.v1
title: Supplementary Material for: Genotype-Clinical Correlations in Polycystic Kidney Disease with No Apparent Family History

description: <b><i>Background:</i></b> Genetic characteristics of polycystic kidney disease (PKD) patients without apparent family history were reported to be different from those with a positive family history. However, the clinical course of PKD patients with no apparent family history is not well documented in the literature. <b><i>Methods:</i></b> We evaluated the relationship between genotype and the clinical course of 62 PKD patients with no apparent family history. <b><i>Results:</i></b> The annual decline of renal function was faster in the patients with <i>PKD1</i>/<i>PKD2</i> mutation (<i>PKD1</i> truncating [–3.08; 95% CI –5.30 to –0.87, <i>p</i> = 0.007], <i>PKD1</i> nontruncating [–2.10; –3.82 to –0.38, <i>p</i> = 0.02], and <i>PKD2</i> [–2.31; –4.40 to –0.23, <i>p</i> = 0.03]) than in the other patients without <i>PKD1</i>/<i>PKD2</i> mutation. Similar results were obtained after adjustment for gender, age, estimated glomerular filtration rate (eGFR), height-adjusted total kidney volume (TKV), and mean arterial pressure (MAP). There was no significant difference in the annual decline of renal function among the different <i>PKD1</i>/<i>PKD2</i> groups, but Kaplan-Meier analysis showed that progression to eGFR &lt; 15 mL/min/1.73 m<sup>2</sup> was significantly faster in <i>PKD1</i> truncating group (<i>p</i> = 0.05). The annual rate of TKV increase was larger in the patients with <i>PKD1</i>/<i>PKD2</i> mutation (<i>PKD1</i> truncating [4.63; 95% CI 0.62–8.64, <i>p</i> = 0.03], <i>PKD1</i> nontruncating [3.79; 0.55–7.03, <i>p</i> = 0.02], and <i>PKD2</i> [2.11; –1.90 to 6.12, <i>p</i> = 0.29]) than in the other patients without <i>PKD1</i>/<i>PKD2</i> mutation. Similar results were obtained after adjustment for gender, age, eGFR, and MAP. <b><i>Conclusion:</i></b> Detection of <i>PKD1</i>/<i>PKD2</i> mutation, especially <i>PKD1</i> truncating, is useful for predicting the renal outcome and rate of TKV increase in PKD patients with no apparent family history.
DOI: 10.7284/123373
title: Winch data collected during research cruise AE1530 using a Markey DUSH-5 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7745732
title: Supplementary Material for: Renal Outcomes of Pregnant Patients with Immunoglobulin A Nephropathy: A Systematic Review and Meta-Analysis

description: <b><i>Background:</i></b> Is the prognosis of immunoglobulin A nephropathy (IgAN) influenced by pregnancy and delivery? The answer to this question still remains to be a controversial topic. Here, we undertook a systematic review and meta-analysis to obtain the overall estimate of potential effect of IgAN and pregnancy on each other. <b><i>Methods:</i></b> We systematically searched MEDLINE, EMBASE, Chinese Biological Medicine and Cochrane for cohort and case-control studies; a total of 1,378 articles were reviewed and 9 studies were included in the end. OR and mean difference (MD) were calculated with a random-effects model, kidney events and pregnancy outcomes were analyzed respectively. <b><i>Results:</i></b> The key finding of the meta-analysis of 145 renal events in 1,198 participants was that there was no difference in renal outcomes (defined as doubling of serum creatinine (SCr), 50% decline in glomerular filtration rate [GFR] and end-stage kidney disease) of pregnant women compared with non-pregnant women who had IgAN (OR 0.90; 95% CI 0.59–1.37; <i>p</i> = 0.63). Subgroup analysis indicated that there was no significant difference between the 2 groups according to sample size, follow-up year, age, level of SCr and proteinuria at baseline. There was no difference in the change of the eGFR/creatinine clearance rate (mL/min/1.73 m<sup>2</sup> per year) in IgAN patients with pregnancy compared with non-pregnancy (MD –0.11 mL/min; 95% CI –0.50–0.27; <i>p</i> = 0.57) as well. Women with IgAN had a higher likelihood of pregnancy outcomes compared with the Chinese general population, while they had a lower risk of preterm delivery, preeclampsia and low birth weight compared with those who had lupus nephritis or diabetic nephropathy. <b><i>Conclusions:</i></b> Pregnancy did not accelerate kidney disease deterioration in women with IgAN in stages of chronic kidney disease 1–3. Moreover, patients with IgAN had a relatively low risk of adverse pregnancy events compared with those with lupus nephritis or diabetic nephropathy.
DOI: 10.6084/m9.figshare.7745738.v1
title: Analysis of lipid droplet content in fission and budding yeasts using automated image processing (reproducibility package)

description: Reproducibility package for article "Analysis of lipid droplets in fission and budding yeasts using automated image processing" (citation pending).Contains:- all input raw image data for S. pombe, S. japonicus and S. cerevisiae- MATLAB scripts for image processing- processed data (segmented images, CSV quantifications) - R scripts for data analysis and visualization.
DOI: 10.7284/123376
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AE1531 using a Hawaii UHDAS instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/123375
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1531 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/123377
title: Fluorometer data collected during research cruise AE1531 using a Turner 10-AU instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7745699
title: Table S5. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Willsher Group. See text for explanation.
DOI: 10.6084/m9.figshare.7745690
title: Table S1. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: Semi-quantitative X-ray diffraction data for representative tuffaceous rocks studied during this work. Sample locations: NZ17.2 Murihiku Terrane, Taringatura Group, Roaring Bay, GPS 59G 04/07843 UTM48/55677. NZ17.12 Kaka Point Structural Belt, Willsher Group, Bates Point, GPS 59G 04/06459 UTM48/63384. NZ17.55 Maitai Group, Kiwi Burn Formation, Bare Peak area. NZ17.66 Brook Street Terrane, Fergus Formation, Hollyford area, GPS 59G 02/71875 UTM50/33507. NZ17.106 Murihiku Terrane, North Range Group, Gavenwood Tuff, Hokonui Hills, Ram Hill section, GPS 59G 02/98621 UTM49/23326. NZ17.108 same section, GPS 59G 02/98584 UTM49/23144. NZ17.117 Murihiku Terrane, Tanangitura Group, Bare Hill Tuff Zone, Hokonui Hills, Bare Hill section, GPS 59G 03/12453 UTM49/03472. NZ17.153 Brook Street Terrane, Grampian Formation, Grampian Reserve, Nelson city, GPS 59G 06/91107 UT54/26296. NZ17.155, same section, GPS 59G 06/91084 UTM54/26296. NZ17.186, Maitai Group, Kiwi Burn Formation, Richmond area, Pig valley quarry, GPS 59G 06/72051 UT54/08551. NZ17.192 Murihiku Terrane, Richmond Group, Stoke-Richmond area, new water tank on Eyles road, off the end of Champion road. GPS 59G 06/85009 UTM48/20053. OU 30296 Murihiku Terrane, Tanangatura Group, Bare Hill Tuff Zone (sample collected by Boles 1971).
DOI: 10.6084/m9.figshare.7745699.v1
title: Table S5. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Willsher Group. See text for explanation.
DOI: 10.7284/123374
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1531 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.7745690.v1
title: Table S1. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: Semi-quantitative X-ray diffraction data for representative tuffaceous rocks studied during this work. Sample locations: NZ17.2 Murihiku Terrane, Taringatura Group, Roaring Bay, GPS 59G 04/07843 UTM48/55677. NZ17.12 Kaka Point Structural Belt, Willsher Group, Bates Point, GPS 59G 04/06459 UTM48/63384. NZ17.55 Maitai Group, Kiwi Burn Formation, Bare Peak area. NZ17.66 Brook Street Terrane, Fergus Formation, Hollyford area, GPS 59G 02/71875 UTM50/33507. NZ17.106 Murihiku Terrane, North Range Group, Gavenwood Tuff, Hokonui Hills, Ram Hill section, GPS 59G 02/98621 UTM49/23326. NZ17.108 same section, GPS 59G 02/98584 UTM49/23144. NZ17.117 Murihiku Terrane, Tanangitura Group, Bare Hill Tuff Zone, Hokonui Hills, Bare Hill section, GPS 59G 03/12453 UTM49/03472. NZ17.153 Brook Street Terrane, Grampian Formation, Grampian Reserve, Nelson city, GPS 59G 06/91107 UT54/26296. NZ17.155, same section, GPS 59G 06/91084 UTM54/26296. NZ17.186, Maitai Group, Kiwi Burn Formation, Richmond area, Pig valley quarry, GPS 59G 06/72051 UT54/08551. NZ17.192 Murihiku Terrane, Richmond Group, Stoke-Richmond area, new water tank on Eyles road, off the end of Champion road. GPS 59G 06/85009 UTM48/20053. OU 30296 Murihiku Terrane, Tanangatura Group, Bare Hill Tuff Zone (sample collected by Boles 1971).
DOI: 10.6084/m9.figshare.7745678
title: Table S4. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Brook Street Terrane. See text for explanation.
DOI: 10.6084/m9.figshare.7745681
title: Table S2. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Maitai Group. See text for explanation.
DOI: 10.6084/m9.figshare.7745684
title: Table S3. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Murihiku Terrane. See text for explanation.
DOI: 10.7284/123378
title: Winch data collected during research cruise AE1531 using a Markey DUSH-5 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7745684.v1
title: Table S3. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Murihiku Terrane. See text for explanation.
DOI: 10.6084/m9.figshare.7745678.v1
title: Table S4. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Brook Street Terrane. See text for explanation.
DOI: 10.6084/m9.figshare.7745681.v1
title: Table S2. Permian–Triassic felsic tuffs in South Island, New Zealand: significance for oceanic and active continental margin subduction

description: ICP and ICP-MS chemical data for samples of tuffaceous sediments from the Maitai Group. See text for explanation.
DOI: 10.7284/123381
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AE1532 using a Hawaii UHDAS instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition