cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7770641
title: Initial Evidence of the Relationships between the Human Postmortem Microbiome and Neighborhood Blight and Greening Efforts

description: The microbiome is important in human health, yet its connection to the built environment remains understudied. Little is known about the potential influence of neighborhood environments on the bacterial and archaea communities that live in and on the human body, henceforth the microbiome. Thus, we examined relationships between the microbiome and features of the urban environment. To do this, we first quantified neighborhood levels of blight (e.g., abandoned buildings) and green remediation (e.g., tree plantings) using parcel data in Detroit, Michigan, and then compared neighborhood status to the composition and diversity of the human postmortem microbiome. The postmortem microbiome served as a surrogate for biological signatures and lifestyles of living neighborhood residents. We observed significant clustering of microbial composition by neighborhood blight, with significantly higher abundances of potential pathogens associated with unhealthy living conditions. We also observed significant clusters between high and low green remediation for the mouth and eye communities only, with high levels of commensals (or nonharmful bacteria) in green remediation neighborhoods. Microbial biodiversity was significantly and positively correlated with green remediation and negatively correlated with blight. Regression models yielded the largest positive effects of green remediation on microbial richness (rectum) and diversity (nose) for women; the largest negative effects of blight were observed for evenness (eyes) among women and richness and diversity (mouth and nose) among men. These results provide evidence of a relationship between the human microbiome and neighborhood conditions, establishing the foundation for novel research opportunities into the effects of green remediation and urban blight on health.
DOI: 10.6084/m9.figshare.7770626
title: Personal Black Carbon measurements Belgium

description: Title: Personal Black Carbon (BC) measurements<br> Size: 45 Mb Year: 2013 Content: This dataset contains raw readouts from portable BC monitors (microaethalometers AE51, Aethlabs) that were carried by 59 volunteers (4 male, 55 female) in the vicinity of two cities in the north of Belgium (Antwerp coded UZA, and Genk coded ZOL). The campaign was set-up by Tijs Louwies, Luc Int Panis and Patrick De Boever (Hasselt University Belgium and Flemish Institute for Technological research, both in Belgium). Structure: The data for each location (UZA, ZOL) are in different folders. There are subfolders for each of the 59 volunteers. There were 23 volunteers in UZA (7 in the first period, 4 in the second period and 12 in the third period) and 36 in ZOL, 12 in each period). Each volunteer carried a device for a week in three different periods in the year 2013. Both the raw data (*.dat files) and the Microsoft Excel-version are provided for each period in a different subfolder. Before and after each period, all devices were co-located so compare their reading and derive correction factors for technical biases. Each sheet in the Microsoft Excel file contains a header including: Device ID = AE51-xx-xxx-xxxx Application version = 1.2.0.1 Flow = xx mlpm (flow rate of the air inlet in milliliter per minute) TimeBase = xx in seconds (rate at which data was recorded) The data contains columns for: Date(yyyy/MM/dd) Time (hh:mm:ss) Ref Sen ATN (attenuation) Flow (air flow rate in milliliter per minute) Temp (temperature in centigrade) Status Battery BC (black carbon concentration in nanograms per cubic meter (ng/m³) This data was used in peer-reviewed publications: Louwies et al. DNA hypomethylation in association with internal and external markers of traffic exposure in a panel of healthy adults, April 2018, Air Quality Atmosphere & Health. DOI: 10.1007/s11869-018-0574-4
DOI: 10.6084/m9.figshare.7770641.v1
title: Initial Evidence of the Relationships between the Human Postmortem Microbiome and Neighborhood Blight and Greening Efforts

description: The microbiome is important in human health, yet its connection to the built environment remains understudied. Little is known about the potential influence of neighborhood environments on the bacterial and archaea communities that live in and on the human body, henceforth the microbiome. Thus, we examined relationships between the microbiome and features of the urban environment. To do this, we first quantified neighborhood levels of blight (e.g., abandoned buildings) and green remediation (e.g., tree plantings) using parcel data in Detroit, Michigan, and then compared neighborhood status to the composition and diversity of the human postmortem microbiome. The postmortem microbiome served as a surrogate for biological signatures and lifestyles of living neighborhood residents. We observed significant clustering of microbial composition by neighborhood blight, with significantly higher abundances of potential pathogens associated with unhealthy living conditions. We also observed significant clusters between high and low green remediation for the mouth and eye communities only, with high levels of commensals (or nonharmful bacteria) in green remediation neighborhoods. Microbial biodiversity was significantly and positively correlated with green remediation and negatively correlated with blight. Regression models yielded the largest positive effects of green remediation on microbial richness (rectum) and diversity (nose) for women; the largest negative effects of blight were observed for evenness (eyes) among women and richness and diversity (mouth and nose) among men. These results provide evidence of a relationship between the human microbiome and neighborhood conditions, establishing the foundation for novel research opportunities into the effects of green remediation and urban blight on health.
DOI: 10.6084/m9.figshare.7770605
title: Clinical experience with the inactivated hepatitis A vaccine, Avaxim 80U Pediatric

description: <b>Introduction</b>: Hepatitis A, caused by hepatitis A virus (HAV), is primarily transmitted via the fecal/oral route either through ingestion of contaminated food and water or through direct contact with an infectious person. Prevalence of hepatitis A is strongly correlated with socioeconomic factors, decreasing with increased socio-economic development, access to clean water and sanitation. Vaccination against HAV should be part of a comprehensive plan for the prevention and control of viral hepatitis, either as part of regular childhood immunization programs or with other recommended vaccines for travelers. <b>Areas covered</b>: We present here evidence for the immunogenicity and safety of an inactivated HAV pediatric vaccine (Avaxim® 80U Pediatric, Sanofi Pasteur), indicated for use in children aged 12 months to 15 years. Data evaluated are from trials undertaken during the clinical development of this vaccine, a systematic literature review and post-market pharmacovigilance. <b>Expert opinion</b>: The pediatric HAV vaccine is highly immunogenic and generates long-lasting protection against hepatitis A disease in children. The safety and immunogenicity data presented in this review suggest that the pediatric HAV vaccine is a valuable option in the prevention of HAV infection in children in many areas of the world where the disease remains a healthcare issue.
DOI: 10.6084/m9.figshare.7770611
title: Supplementary Material for: Serum miR-192 Is Related to Tubulointerstitial Lesion and Short-Term Disease Progression in IgA Nephropathy

description: <b><i>Background/Aims:</i></b> Clinical manifestation and renal histology serve as the current “gold standard” for evaluation of renal lesions in IgA nephropathy. MiR-192 is regarded as a potential noninvasive biomarker for kidney disease. We sought to elucidate a relationship between intrarenal, serum, and urinary exosomal miR-192 with renal lesions and disease progression in IgA nephropathy. <b><i>Methods:</i></b> Serum and urinary exosomal miR-192 were detected and correlated with clinical and pathological parameters from consecutive IgA nephropathy patients (<i>n</i> = 50) and healthy control patients (<i>n</i> = 25). Patients then received a follow-up of 24 months after biopsy. Disease progression was defined as a 40% reduction in estimated glomerular filtration rate. Expression of miR-192 was quantified by Taqman RT-PCR. Intrarenal ­miR-192 was detected in 8 IgA nephropathy patients and 4 matched patients receiving kidney nephrectomy as controls via in situ hybridization. TGF-β1 and E-cadherin expression in renal tissue was evaluated using immunohistochemistry. <b><i>Results:</i></b> Intrarenal miR-192 was correlated with serum miR-192 (<i>r</i> = 0.690, <i>p</i> = 0.013). Both intrarenal and serum miR-192 decreased in IgA nephropathy patients and were correlated with estimated glomerular filtration ratio. Patients with lower intrarenal and serum miR-192 levels had a higher interstitial fibrosis and tubular atrophy score, more severe lesions in tubular atrophy, and interstitial inflammation. Renal E-cadherin expression was correlated (<i>r</i> = 0.484, <i>p</i> = 0.004) and TGF-β1 was inversely correlated (<i>r</i> = –0.527, <i>p</i> &lt; 0.001) with serum miR-192 in IgA. Patients with higher serum miR-192 had a lower disease progression rate over the course of 2 years (0 vs. 16%, <i>p</i> = 0.028). No correlation was found in urinary exosomal miR-192 with the clinical and pathological parameters mentioned earlier. <b><i>Conclusions:</i></b> Lower serum miR-192 in IgA nephropathy patients indicates lower intrarenal miR-192 expression, more severe tubular atrophy, interstitial inflammation, and fibrotic tendency (with higher TGF-β and E-cadherin in renal miR-192). IgA nephropathy patients with higher serum miR-192 are less likely to have renal function decline over the course of 2 years.
DOI: 10.6084/m9.figshare.7770623
title: met_00_06.tar.gz

description: met_em
DOI: 10.6084/m9.figshare.7770611.v1
title: Supplementary Material for: Serum miR-192 Is Related to Tubulointerstitial Lesion and Short-Term Disease Progression in IgA Nephropathy

description: <b><i>Background/Aims:</i></b> Clinical manifestation and renal histology serve as the current “gold standard” for evaluation of renal lesions in IgA nephropathy. MiR-192 is regarded as a potential noninvasive biomarker for kidney disease. We sought to elucidate a relationship between intrarenal, serum, and urinary exosomal miR-192 with renal lesions and disease progression in IgA nephropathy. <b><i>Methods:</i></b> Serum and urinary exosomal miR-192 were detected and correlated with clinical and pathological parameters from consecutive IgA nephropathy patients (<i>n</i> = 50) and healthy control patients (<i>n</i> = 25). Patients then received a follow-up of 24 months after biopsy. Disease progression was defined as a 40% reduction in estimated glomerular filtration rate. Expression of miR-192 was quantified by Taqman RT-PCR. Intrarenal ­miR-192 was detected in 8 IgA nephropathy patients and 4 matched patients receiving kidney nephrectomy as controls via in situ hybridization. TGF-β1 and E-cadherin expression in renal tissue was evaluated using immunohistochemistry. <b><i>Results:</i></b> Intrarenal miR-192 was correlated with serum miR-192 (<i>r</i> = 0.690, <i>p</i> = 0.013). Both intrarenal and serum miR-192 decreased in IgA nephropathy patients and were correlated with estimated glomerular filtration ratio. Patients with lower intrarenal and serum miR-192 levels had a higher interstitial fibrosis and tubular atrophy score, more severe lesions in tubular atrophy, and interstitial inflammation. Renal E-cadherin expression was correlated (<i>r</i> = 0.484, <i>p</i> = 0.004) and TGF-β1 was inversely correlated (<i>r</i> = –0.527, <i>p</i> &lt; 0.001) with serum miR-192 in IgA. Patients with higher serum miR-192 had a lower disease progression rate over the course of 2 years (0 vs. 16%, <i>p</i> = 0.028). No correlation was found in urinary exosomal miR-192 with the clinical and pathological parameters mentioned earlier. <b><i>Conclusions:</i></b> Lower serum miR-192 in IgA nephropathy patients indicates lower intrarenal miR-192 expression, more severe tubular atrophy, interstitial inflammation, and fibrotic tendency (with higher TGF-β and E-cadherin in renal miR-192). IgA nephropathy patients with higher serum miR-192 are less likely to have renal function decline over the course of 2 years.
DOI: 10.6084/m9.figshare.7770623.v1
title: met_00_06.tar.gz

description: met_em
DOI: 10.6084/m9.figshare.7770626.v1
title: Personal Black Carbon measurements Belgium

description: Title: Personal Black Carbon (BC) measurements<br> Size: 45 Mb Year: 2013 Content: This dataset contains raw readouts from portable BC monitors (microaethalometers AE51, Aethlabs) that were carried by 59 volunteers (4 male, 55 female) in the vicinity of two cities in the north of Belgium (Antwerp coded UZA, and Genk coded ZOL). The campaign was set-up by Tijs Louwies, Luc Int Panis and Patrick De Boever (Hasselt University Belgium and Flemish Institute for Technological research, both in Belgium). Structure: The data for each location (UZA, ZOL) are in different folders. There are subfolders for each of the 59 volunteers. There were 23 volunteers in UZA (7 in the first period, 4 in the second period and 12 in the third period) and 36 in ZOL, 12 in each period). Each volunteer carried a device for a week in three different periods in the year 2013. Both the raw data (*.dat files) and the Microsoft Excel-version are provided for each period in a different subfolder. Before and after each period, all devices were co-located so compare their reading and derive correction factors for technical biases. Each sheet in the Microsoft Excel file contains a header including: Device ID = AE51-xx-xxx-xxxx Application version = 1.2.0.1 Flow = xx mlpm (flow rate of the air inlet in milliliter per minute) TimeBase = xx in seconds (rate at which data was recorded) The data contains columns for: Date(yyyy/MM/dd) Time (hh:mm:ss) Ref Sen ATN (attenuation) Flow (air flow rate in milliliter per minute) Temp (temperature in centigrade) Status Battery BC (black carbon concentration in nanograms per cubic meter (ng/m³) This data was used in peer-reviewed publications: Louwies et al. DNA hypomethylation in association with internal and external markers of traffic exposure in a panel of healthy adults, April 2018, Air Quality Atmosphere & Health. DOI: 10.1007/s11869-018-0574-4
DOI: 10.6084/m9.figshare.7770599
title: Events

description: Further details on this file are in the following paper: https://www.nature.com/articles/s41597-019-0247-7. Please cite it if you use the data for your research or analyses.<br><br>This dataset describes all the events that occur during each match. Each event refers to a ball touch and contains the following information:<br>- <b>eventId</b>: the identifier of the event's type. Each eventId is associated with an event name (see next point);<br>- <b>eventName</b>: tteamIdhe name of the event's type. There are seven types of events: pass, foul, shot, duel, free kick, offside and touch;<br>- <b>subEventId</b>: the identifier of the subevent's type. Each subEventId is associated with a subevent name (see next point);<br>- <b>subEventName</b>: the name of the subevent's type. Each event type is associated with a different set of subevent types;<br>- <b>tags</b>: a list of event tags, each one describes additional information about the event (e.g., accurate). Each event type is associated with a different set of tags;<br>- <b>eventSec</b>: the time when the event occurs (in seconds since the beginning of the current half of the match);<br>- <b>id</b>: a unique identifier of the event;<br>- <b>matchId</b>: the identifier of the match the event refers to. The identifier refers to the field "wyId" in the match dataset;<br>- <b>matchPeriod</b>: the period of the match. It can be "1H" (first half of the match), "2H" (second half of the match), "E1" (first extra time), "E2" (second extra time) or "P" (penalties time);<br>- <b>playerId</b>: the identifier of the player who generated the event. The identifier refers to the field "wyId" in a player dataset;<br>- <b>positions</b>: the origin and destination positions associated with the event. Each position is a pair of coordinates (x, y). The x and y coordinates are always in the range [0, 100] and indicate the percentage of the field from the perspective of the attacking team. In particular, the value of the x coordinate indicates the event's nearness (in percentage) to the opponent's goal, while the value of the y coordinates indicates the event's nearness (in percentage) to the right side of the field;<br>- <b>teamId</b>: the identifier of the player's team. The identifier refers to the field "wyId" in the team dataset.<br>
DOI: 10.7284/111656
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0801 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106430
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0801 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111655
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0802 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106431
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0802 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111654
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0803 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106432
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0803 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.7770530.v1
title: Gamma secretase orthologs are required for lysosomal activity and autophagic degradation in <i>Dictyostelium discoideum</i>, independent of PSEN (presenilin) proteolytic function

description: Mutations in the g-secretase complex are strongly associated with familial Alzheimer disease. Both proteolytic and non-proteolytic functions for the γ-secretase complex have been previously described in mammalian model organisms, but their relative contributions to disease pathology remain unclear. Here, we dissect the roles of orthologs of the γ-secretase components in the model system <i>Dictyostelium</i>, focusing on endocytosis, lysosomal activity and autophagy. In this model, we show that the orthologs of PSEN (psenA and psenB), Ncstn (nicastrin) and Aph-1 (gamma-secretase subunit Aph-1), are necessary for optimal fluid-phase uptake by macropinocytosis and in multicellular development under basic condition. Disruption of either psenA/B or Aph-1 proteins also leads disrupted phagosomal proteolysis as well as decreased autophagosomal acidification and autophagic flux. This indicates a general defect in lysosomal trafficking and degradation, which we show leads to the accumulation of ubiquitinated protein aggregates in cells lacking psenA/B and Aph-1 proteins. Importantly, we find that all the endocytic defects observed in <i>Dictyostelium</i> PSEN ortholog mutants can be fully rescued by proteolytically inactive <i>Dictyostelium</i> psenB and human PSEN1 proteins. Our data therefore demonstrates an evolutionarily conserved non-proteolytic role for presenilin, and γ-secretase component orthologs, in maintaining <i>Dictyostelium</i> lysosomal trafficking and autophagy.
DOI: 10.7284/111653
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0804 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106433
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0804 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111652
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0805 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106434
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0805 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106435
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0806 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106436
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0807 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111648
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0808 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106437
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0808 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111647
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0809 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106438
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0809 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106439
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0810 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111645
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE0811 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106440
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE0811 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.7770371
title: Latitudinal gradient in seed dispersal distance

description: Seed dispersal distance dataset for the Ecology Letters paper