High-throughput data analysis
Ontology-based meta-analysis of global collections of high-throughput public data.
... Here we report the development of a novel strategy to explore the biological properties of gene sets found in global collections of public or proprietary large-scale experimental data. The size of gene sets ...
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High throughput phenotypic analysis of Mycobacterium tuberculosis and Mycobacterium bovis strains' metabolism using biolog phenotype microarrays.
... These data established the starting point for this study, that dye reduction occurred with the ...these data represent dye reduction from 48 h to 165 h of incubation, due to bacteria using the substrate ...
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High-throughput analysis of promoter occupancy reveals new targets for Arx, a gene mutated in mental retardation and interneuronopathies.
... Assessment of the specificity of the ChIP protocol To better understand the role of Arx and the effect of its mutations on brain development, we used chromatin immuno- precipitation on promoter arrays (ChIP-chip) to ...
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New perspectives on host-parasite interplay by comparative transcriptomic and proteomic analyses of Schistosoma japonicum.
... a high-throughput proteomics approach to characterize the protein expression profiles of a number of developmental stages (cercariae, hepatic schistosomula, female and male adults, eggs, and miracidia) and ...
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Distilling a Visual Network of Retinitis Pigmentosa Gene-Protein Interactions to Uncover New Disease Candidates.
... and high-throughput data repositories could be extremely useful to answer specific queries if big data approaches were properly customized to retrieve and process ...exploratory data ...
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Next-generation phage display: integrating and comparing available molecular tools to enable cost-effective high-throughput analysis.
... for high-throughput determination of the displayed ligands ...from high-throughput sequencing has also allowed the adoption of more stringent criteria to validate ...Our analysis shows ...
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Intestinal microbiota in healthy U.S. young children and adults--a high throughput microarray analysis.
... Our data is in accordance with this finding, and adds an additional measure of diversity by assessing both the richness and evenness of the microbiota through the Simpson reciprocal and Shannon indices, which ...
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Quantitative analysis of focused a-to-I RNA editing sites by ultra-high-throughput sequencing in psychiatric disorders.
... the data through two rounds of filters and sort the data that passed through the ...for analysis was downloaded from UCSC ...Further data analysis was performed in Microsoft Excel and ...
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Hydrogel Based 3-Dimensional (3D) System for Toxicity and High-Throughput (HTP) Analysis for Cultured Murine Ovarian Follicles.
... toxicity data has been obtained using the mouse in vitro follicle growth, which supports mouse ovarian follicle growth, development, and matu- ration of intact early pre-antral follicles over a culture period of ...
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High throughput gene expression analysis identifies reliable expression markers of human corneal endothelial cells.
... We next examined the expression levels of commonly used CEC markers in our samples. Table 3 shows that most of the markers previously used by other groups are either not expressed in culture (reads per million (RPM) ...
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High throughput screening for anti-Trypanosoma cruzi drug discovery.
... higher throughput for the HTS campaign at the Broad Institute, where screening of 303,224 compounds (the NIH library) yielded 4,394 ...Further analysis of the hits selected by this HTS revealed that a ...
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Bulk segregant analysis by high-throughput sequencing reveals a novel xylose utilization gene from Saccharomyces cerevisiae.
... To identify natural Saccharomyces species/strains that are able to utilize xylose, we screened each strain in our yeast collection for the ability, when placed in liquid medium with xylose as the sole carbon source, to ...
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High-throughput analysis of ammonia oxidiser community composition via a novel, amoA-based functional gene array.
... above). Analysis of the AOB communities within a wastewater treatment plant (WWTP) indicated the presence of sequences related to Nitrosomonas eutropha (probes BamoA-30, BamoA-31, BamoA-1 and BamoA-2) as well as ...
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Identification of fluorescent compounds with non-specific binding property via high throughput live cell microscopy.
... for high-throughput imaging, can identify hits that can later be tested in three dimensional plant species at a lower throughput, ...our analysis indicates that a number of compounds, with ...
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A bioinformatics approach for determining sample identity from different lanes of high-throughput sequencing data.
... of data generated on the HiSeq 2000 are from the same ...This analysis is robust even with different read counts in the lanes being compared, and it can distinguish samples where partial consanguinity ...
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A method for quantitative analysis of standard and high-throughput qPCR expression data based on input sample quantity.
... To confirm the reliability of the sample input quantity method the expression of 4 transcripts (FUT4, CD3E, FDFT1 and B2M) was measured in 5 point and 4-fold two serial dilutions of a standard cDNA sample. To measure the ...
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Transcriptional regulation of rod photoreceptor homeostasis revealed by in vivo NRL targetome analysis.
... integrated analysis of NRL-centered gene regulatory network by coupling chromatin immunoprecipitation followed by high-throughput sequencing (ChIP–Seq) data from Illumina and ABI platforms ...
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WormScan: a technique for high-throughput phenotypic analysis of Caenorhabditis elegans.
... phenotypic data collection of ...are high-throughput assessment of a greater range of phenotypic endpoints including determination of mortality and quantification of the mobility of ...
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Analysis of high-throughput sequencing and annotation strategies for phage genomes.
... assembled data generated by 454 using the Newbler software package with all settings set to default and the ‘-finish’ mode ...full-length, high-quality genome using in silico assembly ...
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Enhanced de novo assembly of high throughput pyrosequencing data using whole genome mapping.
... WGM using the Argus system (OpGen Inc, Gaithersburg, MD) involves four steps: DNA extraction; immobilization and in situ restriction digestion; image capture and measurement; and map assembly and analysis. MRSN ...
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