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  • motif
  • Position-specific scoring matrix Regular expression - denoting multiple sequences of symbols in formal language theory Sequence motif Sequence logo Pierce, Benjamin A. 2002. (wikipedia.org)
  • For both MCF7 and MDA-MB-231 cells, while only 35 and 15 % of peaks respectively contained the FKH consensus motif these were significantly enriched over background. (biomedcentral.com)
  • Moreover, due to the limited success of bioinformatics in producing efficient DNA binding site prediction tools (large false positive rates are often associated with in-silico motif discovery / site search methods), there has been no systematic effort to computationally annotate these features in sequenced genomes. (wikipedia.org)
  • Below is a non-exhaustive table of available databases: A collection of DNA binding sites, typically referred to as a DNA binding motif, can be represented by a consensus sequence. (wikipedia.org)
  • The G5 motif contains a SAK consensus sequence. (wikipedia.org)
  • This motif consists of two amphipathic α-helices, separated by a small sequence of amino acids, that form one or more β-turns. (wikipedia.org)
  • Within metazoa (animal kingdom), the core binding factor (CBF)-DNA complex retains a high degree of conservation within the CCAAT binding motif, as well as the sequences flanking this pentameric motif. (wikipedia.org)
  • It should also be noted that for sequences that flanked the ATTGG motif with two adenine residues (AA) on its 5' end and G(A/G) on its 3' end, seems to have inhibited formation of the CBF-DNA complex and subsequently occurred in only 1% of the promoter sequences. (wikipedia.org)
  • amino acid
  • This is a graphical representation of the consensus sequence, in which the size of a symbol is related to the frequency that a given nucleotide (or amino acid) occurs at a certain position. (wikipedia.org)
  • Although a consensus sequence was found in case of PSA-C1 clones with high frequency, this corresponds only in two amino acid positions with PSA (amino acids 9-15), and two amino acids were of similar physicochemical characteristics (W vs Y). (thefreedictionary.com)
  • No crystal structure has yet been determined for Glis1, however it is homologous to other proteins in many parts of its amino acid sequence whose structures have been solved. (wikipedia.org)
  • Consequently, the proteins translated from alternatively spliced mRNAs will contain differences in their amino acid sequence and, often, in their biological functions (see Figure). (wikipedia.org)
  • In the CAAX box sequence, the C represents the cysteine that is prenylated, the A's represent any aliphatic amino acid and the X determines the type of prenylation that will occur. (wikipedia.org)
  • The sequon is an Asn-X-Ser or Asn-X-Thr sequence, where X is any amino acid except proline and the glycan may be composed of N-acetylgalactosamine, galactose, neuraminic acid, N-acetylglucosamine, fucose, mannose, and other monosaccharides. (wikipedia.org)
  • Genomics
  • We established a genetic linkage map employing 518 simple sequence repeat (SSR, or microsatellite) markers for Bombyx mori (silkworm), the economically and culturally important lepidopteran insect, as part of an international genomics program. (semanticscholar.org)
  • splice
  • Finally splice sites (sequences immediately surrounding the exon-intron boundaries) can also be considered as consensus sequences. (wikipedia.org)
  • A possible explanation of the in-frame skipping of exon 2 and of the neighboring exon 3 is the complete removal of the consensus sequence of the 5' splice site of exon 2/intron 2 (13) and splicing alterations circumventing the nonsense codon in exon 3 of the cDNA so that translation terminates normally (14). (thefreedictionary.com)
  • Microsatellite
  • In this thesis we present Microsatellite Polymorphism Finder (MSPF), a program that detects and then verifies microsatellites by modeling PCR digitally from an Expressed Sequence Tag (EST) or a shotgun-sequencing database without the overhead required to perform PCR chemically with human intervention. (uga.edu)
  • approaches
  • Conclusions: Recent upgrades to the Pacific Biosciences RS instrument have improved the CCS technology and offer an alternative to traditional sequencing approaches. (duhnnae.com)
  • Biology
  • Sequence logos can be generated using WebLogo, or using the Gestalt Workbench, a publicly available visualization tool written by Gustavo Glusman at the Institute for Systems Biology. (wikipedia.org)