cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.t38b3k2/2
title: Dryad Item 10.5061/DRYAD.T38B3K2/2

description: (:tba)
DOI: 10.5061/dryad.t38b3k2/3
title: Dryad Item 10.5061/DRYAD.T38B3K2/3

description: (:tba)
DOI: 10.3886/e110663
title: National Neighborhood Data Archive (NaNDA): Land Cover by Census Tract, United States, 2001-2016

description: This dataset contains measures of land cover (e.g., low-, medium-, or high-density development, forest, wetland, open water) derived from the National Land Cover Database (NLCD) and aggregated by US census tract. Land cover is measured both in total square meters and as a proportion of all land within the tract.
description: All census tracts in the continental United States. No data is available for Alaska, Hawaii, or the United States territories. Smallest Geographic Unit: census tract
DOI: 10.17632/vhzn8xj2sx.1
title: Data for: Tectonics controls on fluvial landscapes and drainage development in the westernmost part of Switzerland: insights from DEM-derived geomorphic indices

description: Calculation of SL- index for the studied rivers (Veyron, Broye, Glane)
DOI: 10.5519/qd.p4qwptgt
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (595 records)
DOI: 10.5281/zenodo.3405521
title: emmetaobrien/nhpatlas: NIH Blueprint Non-Human Primate Atlas

description: The NIH Blueprint Non-Human Primate (NHP) Atlas consists of a suite of gene expression and neuroanatomical data for exploring the cellular and molecular architecture of the developing rhesus macaque brain. This dataset contains datalad links for downloading individual files from the NHP Atlas.
DOI: 10.7910/dvn/0vxza2/iowsjm
title: BECK_STANEK-FULL.tab

description: weekly time series of stock market indexes returns for 44 counties over the 2000-2018 period
DOI: 10.6073/pasta/02a368f453c166ab2361625967294c1d
title: Biogeochemical rate data and sediment properties of samples used for a controlled flow through experiment testing the effect of nitrate on organic matter decomposition, PIE LTER, Plum Island Sound estuary, Massachusetts.

description: In this dataset, we used a controlled flow-through reactor (FTR) experiment to test the role of nitrate as an electron acceptor, and its effect on organic matter decomposition and the associated microbial community in salt marsh sediments. Organic matter decomposition significantly increased in response to nitrate, even at sediment depths typically considered resistant to decomposition. The use of isotope tracers suggests this pattern was largely driven by stimulated denitrification. Nitrate addition also significantly altered the microbial community and decreased alpha diversity, selecting for taxa belonging to groups known to reduce nitrate and oxidize more complex forms of organic matter. Fourier Transform-Infrared Spectroscopy further supported these results, suggesting that nitrate facilitated decomposition of complex organic matter compounds into more bioavailable forms. Taken together, these results suggest the existence of organic matter pools that only become accessible with nitrate and would otherwise remain stabilized in the sediment. The existence of such pools could have important implications for carbon storage, since greater decomposition rates as N loading increases may result in less overall burial of organic-rich sediment. Given the extent of nitrogen loading along our coastlines, it is imperative that we better understand the resilience of salt marsh systems to nutrient enrichment, especially if we hope to rely on salt marshes, and other blue carbon systems, for long-term carbon storage.
DOI: 10.5281/zenodo.3405553
title: Evaluating the Shame Resilience Theory Data

description: Raw data set from study as well as scored data for each measure and scored data for ICIAI sub-scales.
DOI: 10.5061/dryad.ch2740k/1
title: Dryad Item 10.5061/DRYAD.CH2740K/1

description: (:tba)
DOI: 10.5066/p9h65ycc
title: Sap Quantity at Study Sites in the Northeast

description: Maple syrup is produced from the sap of sugar maple collected in the late winter and early spring. Native American tribes have collected and boiled down sap for centuries, and the tapping of maple trees is a cultural touchstone for many people in the northeast and Midwest. Because the tapping season is dependent on weather conditions, there is concern about the sustainability of maple sugaring as climate changes throughout the region. Our research addresses the impact of climate on the quantity and quality of maple sap used to make maple syrup. Sap was sampled at 6 sites across the native range of sugar maple over 2 years as part of the ACERnet collaboration. At each site we sampled 15-25 mature sugar maple trees, and an additional 10 red maple trees at 3 sites. Sap from mature trees was collected using traditional gravity tapping methods following accepted tapping guidelines for gravity tapping. Xylem sap was collected from mid-February through late April, depending on the site, on all days of sap flow. Sap volume and sugar content were measured for each tree during each collection.
DOI: 10.5066/p9pf7wf8
title: Sap Quality at Study Sites in the Northeast

description: Maple syrup is produced from the sap of sugar maple collected in the late winter and early spring. Native American tribes have collected and boiled down sap for centuries, and the tapping of maple trees is a cultural touchstone for many people in the northeast and Midwest. Because the tapping season is dependent on weather conditions, there is concern about the sustainability of maple sugaring as climate changes throughout the region. Our research addresses the impact of climate on the quantity and quality of maple sap used to make maple syrup. Sap was sampled at 6 sites across the native range of sugar maple over 2 years as part of the ACERnet collaboration. At each site we sampled 15-25 mature sugar maple trees, and an additional 10 red maple trees at 3 sites. Sap from mature trees was collected using traditional gravity tapping methods following accepted tapping guidelines for gravity tapping. Xylem sap was collected from mid-February through late April, depending on the site, on all days of sap flow. Sap volume and sugar content were measured for each tree during each collection at site. Sap samples were then frozen and send to the Food and Health Lab at Montana State University for analysis of Total Phenolic Concentration as an additional measure of quality. A sub-set of samples from each site were analyzed for individual secondary metabolites.
DOI: 10.5281/zenodo.3405552
title: A Preliminary Evaluation of the Shame Resilience Theory

description: Raw data set from study as well as scored data for each measure and scored data for ICIAI sub-scales.
DOI: 10.5061/dryad.pt2624c/1
title: Revil archive

description: Spectral induced polarization data of rocks and porous media with graphite
DOI: 10.5281/zenodo.3405481
title: Serum response factor utilizes distinct promoter- and enhancer-based mechanisms to regulate cytoskeletal gene expression in macrophages.

description: Cells of the monocyte/macrophage lineage play essential roles in tissue homeostasis and immune responses, but mechanisms underlying the coordinated expression of cytoskeletal genes required for specialized functions of these cells, such as directed migration and phagocytosis, remain unknown. Here, using genetic and genomic approaches, we provide evidence that serum response factor (SRF) regulates both general and cell type-restricted components of the cytoskeletal gene expression program in macrophages. Genome-wide location analysis of SRF in macrophages demonstrates enrichment of SRF binding at ubiquitously expressed target gene promoters, as expected, but also reveals that the majority of SRF binding sites associated with cell type-restricted target genes are at distal inter- and intragenic locations. Most of these distal SRF binding sites are established by the prior binding of the macrophage- and the B cell-specific transcription factor PU.1 and exhibit histone modifications characteristic of enhancers. Consistent with this, representative cytoskeletal target genes associated with these elements require both SRF and PU.1 for full expression. These findings suggest that SRF uses two distinct molecular strategies to regulate programs of cytoskeletal gene expression: a promoter-based strategy for ubiquitously expressed target genes and an enhancer-based strategy at target genes that exhibit cell type-restricted patterns of expression.
DOI: 10.5281/zenodo.3405482
title: Serum response factor utilizes distinct promoter- and enhancer-based mechanisms to regulate cytoskeletal gene expression in macrophages.

description: Cells of the monocyte/macrophage lineage play essential roles in tissue homeostasis and immune responses, but mechanisms underlying the coordinated expression of cytoskeletal genes required for specialized functions of these cells, such as directed migration and phagocytosis, remain unknown. Here, using genetic and genomic approaches, we provide evidence that serum response factor (SRF) regulates both general and cell type-restricted components of the cytoskeletal gene expression program in macrophages. Genome-wide location analysis of SRF in macrophages demonstrates enrichment of SRF binding at ubiquitously expressed target gene promoters, as expected, but also reveals that the majority of SRF binding sites associated with cell type-restricted target genes are at distal inter- and intragenic locations. Most of these distal SRF binding sites are established by the prior binding of the macrophage- and the B cell-specific transcription factor PU.1 and exhibit histone modifications characteristic of enhancers. Consistent with this, representative cytoskeletal target genes associated with these elements require both SRF and PU.1 for full expression. These findings suggest that SRF uses two distinct molecular strategies to regulate programs of cytoskeletal gene expression: a promoter-based strategy for ubiquitously expressed target genes and an enhancer-based strategy at target genes that exhibit cell type-restricted patterns of expression.
DOI: 10.5281/zenodo.3405611
title: DWD European Weather 2

description: opendata.dwd.de - OpenData by Deutscher Wetter Dienst Conditions: https://www.dwd.de/EN/service/copyright/copyright_node.html dates and times are UTC.
DOI: 10.5066/p9l1j7bg
title: U-series and Sr-isotope data release supporting Tufa and Water Radiogenic Geochemistry and Tufa Ages for Two Karst Aquifers in the Buffalo National River Region, Northern Arkansas

description: This dataset includes tables of U- and Th-isotopic data used to calculate uranium-series age estimates (230Th/U method) and initial 234U/238U activity ratios for samples of tufa mounds formed by groundwater seepage. In addition, data include 87Sr/86Sr and 234U/238U values determined for spring discharge and streamflow collected from sites in the vicinity of Buffalo National River.
DOI: 10.5281/zenodo.3404274
title: LD matrices for 1000 genomes phase 1 files for EUR and YRI

description: Pairwise LD values &gt;=0.8 are stored for SNPs from the Phase1 1000 Genomes panel Format:<br> chr_snp1<br> start_snp1<br> end_snp1<br> rsid_snp1<br> chr_snp2<br> start_snp2<br> end_snp2<br> rsid_snp2<br> r^2<br> (D' provided in some files) EUR_hap.txt<br> from Pouya Kheradpour (Kellis Lab)<br> phase1 of 1000 genomes<br> computed by phased haplotype (preferable)<br> hg19 EUR_geno.txt<br> from Alicia Martin (Bustamante Lab)<br> phase 1 of 1000 genomes<br> computed by genotype<br> hg19 YRI_geno.txt<br> YRI LD from Alicia Martin (Bustamante Lab)<br> phase 1 of 1000 genomes<br> computed by genotype<br> hg19<br>
DOI: 10.5281/zenodo.3404275
title: LD matrices for 1000 genomes phase 1 files for EUR and YRI

description: Pairwise LD values &gt;=0.8 are stored for SNPs from the Phase1 1000 Genomes panel Format:<br> chr_snp1<br> start_snp1<br> end_snp1<br> rsid_snp1<br> chr_snp2<br> start_snp2<br> end_snp2<br> rsid_snp2<br> r^2<br> (D' provided in some files) EUR_hap.txt<br> from Pouya Kheradpour (Kellis Lab)<br> phase1 of 1000 genomes<br> computed by phased haplotype (preferable)<br> hg19 EUR_geno.txt<br> from Alicia Martin (Bustamante Lab)<br> phase 1 of 1000 genomes<br> computed by genotype<br> hg19 YRI_geno.txt<br> YRI LD from Alicia Martin (Bustamante Lab)<br> phase 1 of 1000 genomes<br> computed by genotype<br> hg19<br>
DOI: 10.7910/dvn/3xxcex/4pw2fg
title: 1. LUS CoolBot Cold Room Lebukhali December18.tab

description: :unav
DOI: 10.7910/dvn/3xxcex/ayaabx
title: 1. LUS Chimney Dryer Parerhat April 2018.EW_ Amrita.tab

description: :unav
DOI: 10.7910/dvn/3xxcex/jx1gdq
title: 2.LUS Chimney Dryer Shrirampur August.EW_Amrita.tab

description: :unav
DOI: 10.7910/dvn/3xxcex/sqwpsm
title: 3. LUS CoolBot Cold Room Madhukhali December18.tab

description: :unav
DOI: 10.7910/dvn/3xxcex/ualb4j
title: 2. LUS CoolBot Cold Room Kolapara December18.tab

description: :unav
DOI: 10.7910/dvn/3xxcex/zldety
title: 3. LUS Chimney Dryer Baghar August 2018.tab

description: :unav
DOI: 10.7910/dvn/wuhlr0/0jmhnj
title: Partnering Workshop Complete Report-FINAL Plus CE SAIN Photos.pdf

description: Partnering Workshop - Cambodian Vegetable Value Chain
DOI: 10.17632/2z6z94p8xb.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample HB207AT)
DOI: 10.17632/43x2g39s6z.2
title: Supplementary Materiala S3

description: C/N Ratio of Marion and Dog Lakes
DOI: 10.17632/85h37zd9r6.1
title: Raw datasets for a manuscript titled ''Neuronal control of lipid metabolism by STR-2 GPCR promotes longevity in C. elegans''
DOI: 10.17632/j6sdxytt46.7
title: 3D reconstruction data used to perform selection task

description: In the selection task, participants had to select the region of interest (a specified vessel segment) as explained in the "Experiment_description.pdf" file. They were asked to manipulate (i.e., translate, rotate and scale) a 3D box widget, initially positioned such that the region of interest covered all vessel structures displayed on the screen. Three 3D model files ("level1.vtk", "level2.vtk" and "level.3 vtk") were used to define three complexity levels of the selection task: Level 1 (simple) — one vessel; Level 2 (average) — two closely located vessels; Level 3 (complex) — three vessels, where two vessels are located close to each other. This project was funded by the University of Amsterdam and NWO. This is a new version of the dataset to test RDM implementations
DOI: 10.17632/yrg9jpz3p7.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample HB305AT)
DOI: 10.17632/3mjz8zprpf.1
title: Comparison of the Effectiveness of Percutaneous Intervention of the Left-Main Coronary Artery With Everolimus-Eluting Stents in Women -Vs- Men

description: Everolimus-eluting stents are largely used for left main (LM) percutaneous coronary interventions (PCI) . Long-term follow-up of patients undergoing LM PCI in a real world clinical setting, in particular women, have been scarcely reported. Consecutive patients undergoing unprotected LM PCI with EES at a single Institution from December 2006 to April 2016 were included. Main outcome assessed was the occurrence of major adverse cardiovascular events (MACE) as a composite of death, myocardial infarction or target lesion revascularization at follow-up. Overall, 589 patients (20.8% women), were included in the present analysis. Women were older, had lower BMI and more frequently hypertensive compared to men. Main clinical presentation was stable CAD; unstable angina was more frequently observed in women compared to men, whereas STEMI was less frequent. After 69.7 ± 28.3 months of follow-up, 47 patients overall experienced MACE (1.43 per 100*patients/year). MACE rate was higher in female compared to male patients, with a rate of 2.49 and 1.17 per 100*patients/year, respectively (P=0.015). The difference was driven mainly by higher mortality in women (0.89 vs. 0.15 per 100*patients/years, P=0.002). At multivariable Cox regression, female gender was independently associated with an increased risk of MACE at follow-up (HR 2.21, 95% CI 1.20 – 4.08, P=0.011). In conclusion, EES can be safely and effectively adopted for LM PCI
DOI: 10.17632/f6vytp24ny.1
title: Xience stent single-center registry

description: ABSTRACT Background: Safety and effectiveness of the everolimus-eluting stent (EES) have been previously demonstrated. Aims: To assess very long-term performance and outcomes of the EES in a real-world population. Methods: This single-center registry prospectively enrolled 6,893 patients (mean age 66±9.7 years, 81.4% men) undergoing elective coronary intervention with the EES over a decade. Clinical follow-up (FU) was performed at 1 year and then yearly. Results: Multiple risk factors were present in 34%. Stable angina was the main stenting indication (78.1%), followed by unstable angina (5.3%) and positive stress test (16.6%) for 1- (44%) or 2/3-VD (56%). Multiple stents (stent/patient ratio: 2.1±0.8) in &gt;1vessel were implanted in 36.9% (mean stent length=43±31.3 mm). At 1 year, 80% of patients were on dual antiplatelet therapy, while 3% only at 2 years. A low (5%) 1-year MACE rate was observed; ST occurred in 19 (0.3%) patients with a prevalence of early (9) over late (4) and very late (6) (0.08%) events. Clinically driven TLR/TVR occurred in 3.3% at 1-year follow-up. Long-term FU (3 years) completed in 6210 (90%) patients showed a 5.9% MACE rate, while very long-term (&gt;5 years and up to 10 years) follow-up, available in 3550 out of 4635 exposed patients (72%), showed an 8.6% MACE rate. Independent MACE predictors were stented segment length (OR: 2.1; 95% CI:1.57-2.82), small vessel stenting (OR: 1.34;95% CI: 1.08-1.68) and multivessel disease (2VD, OR:1.59; 95% CI: 1.21-2.08; 3VD, OR: 2.26; 95% CI: 1.72-2.97). Conclusions: This large prospective registry confirms the very long-term safety and efficacy of the EES in unselected real world and complex coronary lesions.
DOI: 10.17632/r49wwrw9st.3
title: "LRRK2 kinase activity regulates lysosomal glucocerebrosidase in Parkinson's disease pathogenesis" Sequencing Data

description: Sequencing of GBA1 (all exons) and LRRK2 (Exon 31 and 41) for all lines included in the manuscript: LRRK2 kinase activity regulates lysosomal glucocerebrosidase in Parkinson's disease pathogenesis. We do not observed unexpected point mutations in these genes in non-mutant cell lines.
DOI: 10.17632/28sc4297tk.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample KB170AT section 1-1)
DOI: 10.17632/37gt2vbw5h.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample LNcap)
DOI: 10.17632/8k5yvvb8yb.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample KB170AT section 1-2)
DOI: 10.17632/b98drwjsr2.1
title: Vitamin D supplementation and cardiac function.

description: Raw data of the clinical trial NCT03403933. We enrolled 47 older adults scheduled for major orthopaedic surgery and suffering from hypovitaminosis D. Patients underwent 6-months calcifediol supplementation with a starting dose at first post-operative day of 50 µg/die in liquid preparation. Down-titration to 20 µg/die at 3-months assessment was planned. Cardiac performance was evaluated by measuring left ventricular ejection fraction (LVEF) and global longitudinal strain (GLS) during pre-operative assessments and at 1-month, 3-months, 6-months follow-ups. The dataset was used to write the article "Correction of hypovitaminosis D improved global longitudinal strain earlier than left ventricular ejection fraction in cardiovascular older adults after orthopaedic surgery", which was published by the Journal of Geriatric Cardiology in 2018.
DOI: 10.17632/bm6xv2c3sk.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample IB134T)
DOI: 10.17632/xs2sphbtz6.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample HB46T)
DOI: 10.17632/yp63pdb54j.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample HB526T)
DOI: 10.17632/58ptsnxjnf.1
title: Self-harm

description: literature review
DOI: 10.17632/p4vgc8jp4k.1
title: Pten-NOLC1 Fusion Promotes C-MET and EGFR Signaling in Human Cancers (RNAseq Sample IB298T)
DOI: 10.17632/vt53ktk5t2.1
title: Responses of natural phytoplankton assemblages to anthropic perturbations: the case of a low concentration oil spill scenario

description: Phytoplankton, playing a key role in marine food webs and carbon fluxes between the atmosphere and the ocean, can be negatively affected by anthropogenic contamination such as hydrocarbon spills. Hydrocarbon spills from catastrophic events as well as from chronic, limited leaks, represent one of the main pollution sources in oceans. Low concentration inputs, mostly from highly toxic refined oils, are less studied than crude oil spills, although their effects could be significant for marine organisms’ phytoplankton ones. The main objective of the present study was to examine the responses on the biomass, density and taxonomic/pigments composition of natural phytoplankton assemblages exposed to a low-concentration diesel pollution scenario, using an experimental mesocosms approach. One control and two kinds of exposures were simulated, one with a single addition (20 mL) of diesel (Ci = 0. 845 mg L-1) during the phytoplankton bloom, and the other one with the same diesel concentration, but “split” twice and added respectively during the pre-bloom and the bloom periods of phytoplankton succession. The mainly significant effects were detected during the post-bloom in both exposure cases. Diesel exposures significant decline both phytoplankton biomass (derived from Chl a and pigment concentration or carbon estimation) and cell density of the main functional groups identified by different independent techniques (flow cytometry, image analysis, microscopical observation). One of the main results highlighted a shift in phytoplankton composition under diesel exposure from a diatom-dominated phytoplankton assemblage to a small-dominated one (nano-flagellates and cyanobacteria). Changes from assemblages dominated by large cells to other dominated by small cells in response to diesel addition may affect the pelagic food webs in the area, resulting in faster carbon cycling in the ocean surface with the consequent decrease in the biological pump. Our study suggests that Lower Saint Lawrence’s estuarine ecosystem remains a fragile environment, which would be strongly impacted by the increase in global transportation of oil products.
DOI: 10.17632/yx22hyw853.1
title: Topology optimization of MBB and a Simplified Side Impact Problem using a Spatial kernel

description: These are the computer models used for structural topology optimization from the paper "A spatial kernel approach for topology optimization" by Roux, Yi, and Gandikota.