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96 results for “nucleotide sequences”
Raw data associated with the article: "Single-molecule DNA sequencing of widely varying GC-content using nucleotide release, capture and detection in microdroplets.", NAR, Puchtler et.al.
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Data from: "454 sequencing of reduced representation libraries to discover single nucleotide polymorphisms (SNPs) in Megabunus harvestmen" in Genomic Resources Notes accepted 1 December 2013 to 31 January 2014
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Data from: Development of an Arabis alpina genomic contig sequence dataset and application to single nucleotide polymorphisms discovery
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Data from: Nucleotide polymorphism and copy number variant detection using exome capture and next generation sequencing in the polyploid grass Panicum virgatum
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Genome-wide single nucleotide polymorphism array and whole-genome sequencing reveal the inbreeding progression of Banna minipig inbred line
GEO Series GSE157935. Sus scrofa. 49 samples. Type: Genome variation profiling by high throughput sequencing; Genome variation profiling by SNP array; SNP genotyping by SNP array.
Subcellular genomics shows pervasive within-mitochondrion single nucleotide variant heteroplasmy as revealed by single mitochondrion sequencing
GEO Series GSE107115. Mus musculus. 158 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome sequencing of Eucalyptus camaldulensis seedlings subjected to water stress reveals functional single nucleotide polymorphisms and genes under selection.
GEO Series GSE39369. Eucalyptus camaldulensis. 12 samples. Type: Expression profiling by high throughput sequencing.
High throughput error correction using dual nucleotide dimer blocks allows direct single-cell nanopore transcriptome sequencing
GEO Series GSE162053. Mus musculus; Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Deep Sequence Analysis of non-small cell lung cancer: Integrated analysis of gene expression, alternative splicing, and single nucleotide variations in lung adenocarcinomas with and without oncogenic
GEO Series GSE34914. Homo sapiens. 16 samples. Type: Expression profiling by high throughput sequencing.
Potato virus Y HCPro suppression of antiviral silencing in Nicotiana benthamiana plants correlates with its ability to bind in vivo to small RNAs of 21 and 22 nucleotides in length of viral sequence
GEO Series GSE71921. Nicotiana benthamiana. 6 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Individual-nucleotide resolution CLIP and high-throughput sequencing to map hnRNP L-RNA interactions in HeLa cells
GEO Series GSE37560. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Allelic imbalance sequencing reveals that single-nucleotide polymorphisms frequently alter microRNA-directed repression
GEO Series GSE15675. Mus musculus. 12 samples. Type: Other.
NMD-degradome sequencing reveals ribosome-bound intermediates with 3'-end nontemplated nucleotides
GEO Series GSE111818. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Single-nucleotide-resolution sequencing of human N6-methyldeoxyadenosine reveals strand-asymmetric clusters associated with SSBP1 in the mitochondrial genome
GEO Series GSE119094. Homo sapiens; Escherichia coli; Salmonella enterica subsp. enterica serovar Typhimurium. 11 samples. Type: Other.
Single Nucleotide Polymorphism (SNP) and Antibody-based Cell Sorting (SNACS): A tool for demultiplexing single-cell DNA sequencing data
GEO Series GSE255224. Homo sapiens. 15 samples. Type: Other.
A novel approach for simultaneous detection of structural and single-nucleotide variants based on a combination of chromosome conformation capture and exome sequencing
GEO Series GSE253950. Homo sapiens. 70 samples. Type: Other; Expression profiling by high throughput sequencing.
Mapping the targeting transcripts and binding sites of ALKBH5 by individual-nucleotide resolution UV crosslinking and immunoprecipitation-based sequencing (iCLIP-seq)
GEO Series GSE134754. Mus musculus. 4 samples. Type: Other.
Simulated nucleotide sequences for testing alignment-free genome distance estimates
<p>This repository contains (12×500=)6,000 pairs of nucleotide sequences that have been simulated for testing alignment-free genome distance estimates, as described in <a href="https://riojournal.com/article/36178/">Criscuolo (2019)</a>. Given an evolutionary distance <em>d</em> varying from 0.05 to 0.60 (step = 0.05), the program <a href="http://tree.bio.ed.ac.uk/software/seqgen/">SeqGen</a> was used to simulate the evolution of 500 nucleotide sequence pairs with <em>d</em> substitution events per character (GTR+Γ evolutionary model).</p> <p>For each of the 12 evolutionary distances <em>d</em> = 0.05, 0.10, ..., 0.60, an XZ-compressed file containing 500 lines is available. Each line contains 18 fields separated by blank spaces:<br> [1] seed value used during simulation,<br> [2] true evolutionary distance <em>d</em> between the two simulated sequences,<br> [3] total number of simulated characters,<br> [4] number of non-indel characters with nucleotide mismatch,<br> [5] number of non-indel characters,<br> [6-9] A, C, G, T frequencies used during simulation,<br> [10-15] GTR parameters used during simulation,<br> [16] Γ distribution parameter used during simulation,<br> [17-18] two simulated sequences with indel events as gaps.</p> <p>Of note, each pair of aligned sequences without gaps can be regenerated using <a href="http://tree.bio.ed.ac.uk/software/seqgen/">SeqGen</a> v1.3.4 with parameters from fields [1,3,6-16] and the following two-leaf model tree:</p> <pre>(t1:d,t2:0.000);</pre> <p>where <em>d</em> is given in field [2].</p> <p>___</p> <p>Criscuolo A (2019) <em>A fast alignment-free bioinformatics procedure to infer accurate distance-based phylogenetic trees from genome assemblies</em>. Research Ideas and Outcomes, 5:e36178. doi:<a href="https://doi.org/10.3897/rio.5.e36178">10.3897/rio.5.e36178</a></p>
Identification Sepsis Related Single Nucleotide Polymorphism (SNP) by Whole Exome Sequencing
ClinicalTrials.gov study NCT01920217. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Individual-nucleotide resolution CLIP and high-throughput sequencing for FOX2, TDP43 and hnRNP M in WT and P-KO H9 cells
GEO Series GSE85851. Homo sapiens. 12 samples. Type: Other.
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International Brain Laboratory public data
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OpenNeuro
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