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793 results for “Startes”
Data from: Soil sampling and isolation of extracellular DNA from large amount of starting material suitable for metabarcoding studies
DNA metabarcoding corresponds to the DNA-based identification of multiple species from a single complex and degraded environmental sample. We developed new sampling and extraction protocols suitable for DNA metabarcoding analyses, targeting soil extracellular DNA. The proposed sampling protocol has been designed to reduce as much as possible the influence of the local heterogeneity by processing large amount of soil, resulting from the mixing of many different cores. The DNA extraction is based on the use of saturated phosphate buffer. The sampling and extraction protocols were validated first by analyzing plant DNA from a set of 12 plots corresponding to four plant communities in alpine meadows, and second by conducting pilot experiments on fungi and earthworms. The results of the validation experiments clearly demonstrated that sound biological information can be retrieved when following these sampling and extraction procedures. Such a protocol can be implemented at any time of the year without any preliminary knowledge of specific types of organisms during the sampling. It offers the opportunity to analyze all groups of organisms using a single sampling/extraction procedure and opens the possibility to fully standardize biodiversity surveys.
Data from: Urgent-start peritoneal dialysis and hemodialysis in ESRD patients: complications and outcomes
Background: Several studies have suggested that urgent-start peritoneal dialysis (PD) is a feasible alternative to hemodialysis (HD) in patients with end-stage renal disease (ESRD), but the impact of the dialysis modality on outcome, especially on short-term complications, in urgent-start dialysis has not been directly evaluated. The aim of the current study was to compare the complications and outcomes of PD and HD in urgent-start dialysis ESRD patients. Methods: In this retrospective study, ESRD patients who initiated dialysis urgently without a pre-established functional vascular access or PD catheter at a single center from January 2013 to December 2014 were included. Patients were grouped according to their dialysis modality (PD and HD). Each patient was followed for at least 30 days after catheter insertion (until January 2016). Dialysis-related complications and patient survival were compared between the two groups. Results: Our study enrolled 178 patients (56.2% male), of whom 96 and 82 patients were in the PD and HD groups, respectively. Compared with HD patients, PD patients had more cardiovascular disease, less heart failure, higher levels of serum potassium, hemoglobin, serum albumin, serum pre-albumin, and lower levels of brain natriuretic peptide. There were no significant differences in gender, age, use of steroids, early referral to a nephrologist, prevalence of primary renal diseases, prevalence of co-morbidities, and other laboratory characteristics between the groups. The incidence of dialysis-related complications during the first 30 days was significantly higher in HD than PD patients. HD patients had a significantly higher probability of bacteremia compared to PD patients. HD was an independent predictor of short-term (30-day) dialysis-related complications. There was no significant difference between PD and HD patients with respect to patient survival rate. Conclusion: In an experienced center, PD is a safe and feasible dialysis alternative to HD for ESRD patients with an urgent need for dialysis.
Data from: Paired-end analysis of transcription start sites in Arabidopsis reveals plant-specific promoter signatures
Understanding plant gene promoter architecture has long been a challenge due to the lack of relevant large-scale data sets and analysis methods. Here, we present a publicly available, large-scale transcription start site (TSS) data set in plants using a high-resolution method for analysis of 5′ ends of mRNA transcripts. Our data set is produced using the paired-end analysis of transcription start sites (PEAT) protocol, providing millions of TSS locations from wild-type Columbia-0 Arabidopsis thaliana whole root samples. Using this data set, we grouped TSS reads into "TSS tag clusters" and categorized clusters into three spatial initiation patterns: narrow peak, broad with peak, and weak peak. We then designed a machine learning model that predicts the presence of TSS tag clusters with outstanding sensitivity and specificity for all three initiation patterns. We used this model to analyze the transcription factor binding site content of promoters exhibiting these initiation patterns. In contrast to the canonical notions of TATA-containing and more broad "TATA-less" promoters, the model shows that, in plants, the vast majority of transcription start sites are TATA free and are defined by a large compendium of known DNA sequence binding elements. We present results on the usage of these elements and provide our Plant PEAT Peaks (3PEAT) model that predicts the presence of TSSs directly from sequence.
Data from: Reorientation and propulsion in fast-starting zebrafish larvae: an inverse dynamics analysis
Most fish species use fast starts to escape from predators. Zebrafish larvae perform effective fast starts immediately after hatching. They use a C-start, where the body curls into a C-shape, and then unfolds to accelerate. These escape responses need to fulfil a number of functional demands, under the constraints of the fluid environment and the larva's body shape. Primarily, the larvae need to generate sufficient escape speed in a wide range of possible directions, in a short-enough time. In this study, we examined how the larvae meet these demands. We filmed fast starts of zebrafish larvae with a unique five-camera setup with high spatiotemporal resolution. From these videos, we reconstructed the three-dimensional swimming motion with an automated method and from these data calculated resultant hydrodynamic forces and, for the first time, 3D torques. We show that zebrafish larvae reorient mostly in the first stage of the start by producing a strong yaw torque, often without using the pectoral fins. This reorientation is expressed as the body angle, a measure that represents the rotation of the complete body, rather than the commonly used head angle. The fish accelerates its centre of mass mostly in stage 2 by generating a considerable force peak while the fish "unfolds". The escape direction of the fish correlates strongly with the amount of body curvature in stage 1, while the escape speed correlates strongly with the duration of the start. This may allow the fish to independently control the direction and speed of the escape.
MolHyb - Getting Started Video Tutorial for New Users
<p>MolHyb - Getting Started Video Tutorial for New Users</p>
Sequencing of historical plastid genomes reveal exceptional genetic diversity in rye before the start of systematic breeding
<p>The files found in this repository are sequencing files of historical rye samples used for generating the analyses presented in the Komluski et al. manuscript. The metadata.csv contains sampling sites and taxon information for the respective sequence file.</p>
Trans-START gene expression data
<p>Normalised matrix of gene expression data for the Trans-START clinical trial (NCT 03383679). Published in Lancet Oncology: "<em>Darolutamide or capecitabine in triple-negative, androgen receptor-positive, advanced breast cancer (UCBG 3-06 START): a multicentre, non-comparative, randomised, phase 2 trial"</em></p>
Supplementary Material Requirements Study - Identifying Necessary Green Coding Knowledge for Young Professionals Starting their Careers in the Software Industry Full Audio Transcript with transcribers Notes
Open the record for dataset details and reuse information.
CIMIC video for START project informed consent
Open the record for dataset details and reuse information.
Data from: Divergent pathways of nitrogen-fixing trees through succession depend on starting nitrogen supply and priority effects
<p>Nitrogen-fixing trees are a major potential source of nitrogen into terrestrial ecosystems. The degree to which they persist into older forests has considerable implications for forest nitrogen budgets. We characterized nitrogen-fixing tree abundance across stand age in the contiguous United States and analyzed a theoretical model to help understand competitive outcomes and successional trajectories of nitrogen-fixing and nonfixing trees. Nitrogen-fixing tree abundance is bimodal in all regions except the northeastern United States, even in older forests, suggesting that competitive exclusion (including priority effects) is more common than coexistence at the spatial scale of our analysis. Our model analysis suggests conditions under which alternative competitive outcomes are possible and when they are transient (lasting decades-centuries) vs. persistent (millennia). Critically, the timescale of the feedbacks between nitrogen-fixation and soil nitrogen supply, which is thought to drive the exclusion of nitrogen-fixing trees through succession, can be long. Therefore, the long-transient outcomes of competition are more relevant for real forests than the long-term equilibrium. Within these long-term transients, the background soil nitrogen supply is a major determinant of competitive outcomes. Consistent with the expectations of resource ratio theory, competitive exclusion is more likely at high and low nitrogen supply while intermediate nitrogen supply makes coexistence or priority effects possible. However, these outcomes are modified by the nitrogen-fixation strategy: Obligate nitrogen-fixation makes coexistence more likely than priority effects, compared to perfectly facultative fixation. These results advance our understanding of the successional trajectories of nitrogen-fixing trees and their effects on ecosystem development in secondary succession.</p>
Molecular dynamics simulations of BmrA starting from X-ray and cryo-EM structure
<p>This archive contains all the MD trajectories presented in the article<br> 'Drug-bound and -free outward-facing structures of a multidrug ABC exporter point to a swing mechanism'<br> by Chaptal et al,<br> https://doi.org/10.1101/2021.03.12.435132</p> <p><br> MD simulations of the BMRA Xray structure:<br> - 4 replicates with short equilibration:<br> BMRA_Xray_run1<br> BMRA_Xray_run2<br> BMRA_Xray_run3<br> BMRA_Xray_run4 <br> - 2 replicates with long equilibration:<br> BMRA_Xray_run5<br> BMRA_Xray_run6</p> <p>MD simulations of the BMRA Cryo-EM:<br> - 4 replicates with short equilibration:<br> BMRA_Cryo_run1<br> BMRA_Cryo_run2<br> BMRA_Cryo_run3<br> BMRA_Cryo_run4<br> - 2 replicates with long equilibration:<br> BMRA_Cryo_run5<br> BMRA_Cryo_run6</p> <p>MD simulations of BMRA + R6G:<br> BMRA_R6G_run1<br> BMRA_R6G_run2<br> BMRA_R6G_run3</p> <p> </p>
Starting Dataset: CIIE 2018 folio number 2018062802133: A Computational Literature Review of Educational Innovation
<p>Preliminary data set</p>
Starting Early to Prevent Obesity Using Telehealth (StEP OUT): Pilot RCT
ClinicalTrials.gov study NCT07254065. IPD Sharing: YES. Countries: 1. Publications: 0.
BIS-Guided Propofol vs Remifentanil for Gastroscopy: Effects on Procedure Start Time and Recovery
ClinicalTrials.gov study NCT07336628. IPD Sharing: NO. Countries: 0. Publications: 0.
Obesity Prevention in Head Start
ClinicalTrials.gov study NCT03672227. IPD Sharing: NO. Countries: 1. Publications: 0.
Healthy Start: Family Childcare Providers and Parents
ClinicalTrials.gov study NCT06978270. IPD Sharing: YES. Countries: 0. Publications: 7.
A Study in Taiwan Based on Medical Records That Looks at the Occurrence of Flare-ups in Patients With Chronic Obstructive Pulmonary Disease (COPD) Who Started LABA/LAMA or LAMA Treatment
ClinicalTrials.gov study NCT04011475. IPD Sharing: NO. Countries: 1. Publications: 0.
Head Start Family and Child Experiences Survey (FACES 2019)
ClinicalTrials.gov study NCT03971435. IPD Sharing: YES. Countries: 1. Publications: 0.
Bright Start Study
ClinicalTrials.gov study NCT05356130. IPD Sharing: NO. Countries: 1. Publications: 0.
HIV in Specific Parts of the Body of Patients Who Are Changing or Starting Potent Anti-HIV Drugs
ClinicalTrials.gov study NCT00007488. IPD Sharing: Not stated. Countries: 1. Publications: 1.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.