Abstract. The Ensembl Trace Archive ( http://trace.ensembl.org/ ) and the EMBL Nucleotide Sequence Database ( http://www.ebi.ac.uk/embl/ ), known together
InHomo sapiens, three distinct isoforms of PRPS, which share a high degree of similarity in their sequences, have been identified. PRPS1 and PRPS2 are expressed across a broad array of tissues, whereas PRPS3 expression appears exclusive to testis8,9. PRPS1 exists in dynamic monomer, dimer ...
Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Typical use cases include: (1) mapping PacBio or Oxford Nanopore genomic reads to the human genome; (2) finding overlaps between long reads with error rate up to ~15%; ...
Gluten specific, HLA-DQ restricted T cells from coeliac mucosa produce cytokines with Th1 or Th0 profile dominated by interferon gamma. Coeliac disease is precipitated in susceptible subjects by ingestion of wheat gluten or gluten related prolamins from some other cereals. The disease is strongly ...
All genome sequences were taken from the Ensembl database (version 90). Bam files for each data set were merged and converted into a CIT file using the GEDI toolkit34 and then processed using GRAND-SLAM (version 2.0.7; for the NXF1 data set, GRAND-SLAM 2.0.5 g was used) with ...
The first step is to obtain genome data for analysis.pyaniexpects to find each individual genome in its own FASTA file (that file can contain multiple sequences - chromosomes and plasmids; sequenced scaffolds, etc). All the FASTA files for an analysis are expected to be located in a single...
Lastly, we applied MATCH program to identify potential TF binding proteins at selected SNP sequences. This analysis showed potential disruption of TF binding at six of the 74 SNP sites. For example, the SNP rs113082846 showed a strong eQTL signal with gene NCOA4 (p value = 5.32 × 10−...
A single nucleotide polymorphism (SNP) refers to a variation in the DNA sequence between individuals. For example, GGAATC and GGAACC differ by a single nucleotide. In this situation there are two alleles: T and C. SNP mutations can occur anywhere in the coding sequences of genes, non-codi...
Sequence AlignmentSequence Analysis, DNARegulatory Sequences, Nucleic AcidMutationGenome, ViralComputer SystemsSoftwarep pBackground/p pWith ever increasing numbers of closely related virus genomes being sequenced, it has become desirable to be able to compare two genomes at a level more detailed than...
Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Typical use cases include: (1) mapping PacBio or Oxford Nanopore genomic reads to the human genome; (2) finding overlaps between long reads with error rate up to ~15%; ...