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45
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ShareScore release 0.9.0
Dataset results
45 results for “HTS”
Additional Data of O.Buß and S.Jager: "Statistical Evaluation of HTS Assays for Enzymatic Hydrolysis of ß-Keto Esters")
<p>The additional data set includes:</p> <ul> <li>Pdb structure files, which were used for calculations/pictures.</li> <li>R-scripts for calculation of statistical measures like Z-factor, SSMD and others.</li> <li>Data of different activity assays, which were used for R-script calculations.</li> <li>a SDS-PAGE (gel with all used enzymes)</li> </ul> <p>View our publication under: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0146104</p>
Application of high-throughput sequencing (HTS) metabarcoding to diatom biomonitoring: Do DNA extraction methods matter?
<p>The 8 benthic samples from Mainland France (stream Edian, stream Aire, lake Geneva), Sweden (stream Dåmman, Agricultural stream, lake Båtkåjaure) and Mayotte (stream Dapani, stream Majimbini) were collected by scraping material from the surface of stones, following the French standard (AFNOR 2007) used in routine biomonitoring programs.DNA was extracted from each sample (2 replicates) using five DNA extraction methods, followed by the amplification of a short rbcL DNA barcode (312bp) specific to diatoms. PCR products were then sequenced in one random direction using the Ion Torrent™ Personal Genome Machine® (PGM) System according to the manufacturer’s instructions. The data file contains one fastq file per library sequenced with the raw DNA reads, as provided by the sequencing platform (demultiplexing performed by the sequencing platform). An excel file is also provided to make the link between the fastq file number and the sample information (sample origin, DNA extraction method used, number of raw reads).</p>
List of publicly available cellular reprogramming HTS datasets
<p>These datasets were obtained by manual curation via the following procedure: First, I queried GEO using keywords in the list below. </p> <ol> <li>Yamanaka</li> <li>Yamanaka AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>Reprogramming AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>OSKM AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>Sox2 AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>Sox2 reprogramming AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>somatic reprogramming AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>somatic cell reprogramming AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>Reprogramming pluripotency AND ("Genome binding/occupancy profiling by high throughput sequen"[Filter]) </li> <li>Reprogramming pluripotency </li> <li>Reprogramming pluripotency AND ("Methylation profiling by high throughput sequencing"[Filter]) </li> <li>OSKM AND ("Methylation profiling by high throughput sequencing"[Filter]) </li> <li>Sox2 Reprogramming AND ("Methylation profiling by high throughput sequencing"[Filter]) </li> </ol> <p>Results were selected for manual input if they contained either transcriptomic (e.g., RNA-Sequencing) or epigenomics (e.g., RRBS) data and had at least one intermediate cellular reprogramming timepoint. </p> <p> </p>
Data from: A from-benchtop-to-desktop workflow for validating HTS data and for taxonomic identification in diet metabarcoding studies
The main objective of this work was to develop and validate a robust and reliable 'from benchtop-to-desktop' metabarcoding workflow to investigate the diet of invertebrate-eaters. We applied our workflow to fecal DNA samples of an invertebrate-eating fish species. A fragment of the COI gene was amplified by combining two minibarcoding primer sets to maximize the taxonomic coverage. Amplicons were sequenced by an Illumina MiSeq platform. We developed a filtering approach based on a series of non-arbitrary thresholds established from control samples and from molecular replicates in order to address the elimination of cross-contamination, PCR/sequencing errors and mistagging artifacts. This resulted in a conservative and informative metabarcoding dataset. We developed a taxonomic assignment procedure that combines different approaches and that allowed the identification of ~75% of invertebrate COI variants to the species level. Moreover, based on the diversity of the variants, we introduced a semi-quantitative statistic in our diet study, the Minimum Number of Individuals (MNI), which is based on the number of distinct variants in each sample. The metabarcoding approach described in this paper may guide future diet studies that aim to produce robust datasets associated with a fine and accurate identification of prey items.
Data from: A from-benchtop-to-desktop workflow for validating HTS data and for taxonomic identification in diet metabarcoding studies
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Efficacy, Safety, and Tolerability of HTS-519 Insert in Patients With Toenail Fungus of the Big Toenail
ClinicalTrials.gov study NCT02798380. IPD Sharing: NO. Countries: 1. Publications: 0.
Genome-wide analysis of miRNA-mRNA interactions in the marrow microenvironment (HTS)
GEO Series GSE41272. Homo sapiens. 16 samples. Type: Other.
HTS based monitoring of the efficiency of somatic embryogenesis and meristem culture as a method used for virus elimination in grapevine
GEO Series GSE159758. Vitis vinifera. 10 samples. Type: Non-coding RNA profiling by high throughput sequencing.
The histone demethylase JMJD2B regulates endothelial-to-mesenchymal transition [HTS]
GEO Series GSE143148. Mus musculus; Homo sapiens. 27 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
A mechanistic rationale for targeting the unfolded protein response in pre-B acute lymphoblastic leukemia [HTS]
GEO Series GSE53683. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
Aberrant haematopoiesis in Dnmt2 mutant mice [HTS 2]
GEO Series GSE65757. Mus musculus. 8 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Conserved forkhead dimerization motif controls DNA replication timing and spatial organization of chromosomes in S. cerevisiae (HTS)
GEO Series GSE94795. Saccharomyces cerevisiae. 22 samples. Type: Other.
Genetics of gene expression responses to temperature stress in a sea urchin gene network (HTS)
GEO Series GSE38606. Strongylocentrotus purpuratus. 7 samples. Type: Expression profiling by high throughput sequencing.
Aberrant hematopoiesis in Dnmt2 mutant mice [HTS 1]
GEO Series GSE65724. Mus musculus. 4 samples. Type: Non-coding RNA profiling by high throughput sequencing; Other.
FoxA1 specifies unique androgen and glucocorticoid receptor binding events in prostate cancer cells (HTS)
GEO Series GSE39879. Homo sapiens. 22 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Control of Somatic Tissue Differentiation by the Long Non-Coding RNA TINCR (HTS)
GEO Series GSE40121. Homo sapiens. 3 samples. Type: Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Functional characterization of RNA-binding protein IMP2 in primary Glioma cell lines [HTS]
GEO Series GSE73845. Homo sapiens; Mus musculus. 25 samples. Type: Expression profiling by high throughput sequencing.
Comparison of microRNA Profiling Platforms (HTS)
GEO Series GSE51507. Homo sapiens. 10 samples. Type: Non-coding RNA profiling by high throughput sequencing.
VIROME OF PEACH TREES IDENTIFIED BY SMALL RNA HTS IN HUNGARY
GEO Series GSE130859. Prunus persica. 5 samples. Type: Non-coding RNA profiling by high throughput sequencing.
A Phase II/III of Hepenofovir Fumarate Tablets (HTS) for Chronic Hepatitis B
ClinicalTrials.gov study NCT07203118. IPD Sharing: NO. Countries: 1. Publications: 0.
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