m02-biological_sequences
... homology). Homologous sequences differ due to nucleotide substitutions, insertions, and deletions. Identifying sequence homology is fundamental to many analyses of biological data (e.g. comparative genomics, protein functional assignment). Small-scale similarity (e.g. sequence motifs) can also resul ...
... homology). Homologous sequences differ due to nucleotide substitutions, insertions, and deletions. Identifying sequence homology is fundamental to many analyses of biological data (e.g. comparative genomics, protein functional assignment). Small-scale similarity (e.g. sequence motifs) can also resul ...
BioInformatics Tools ppt
... SP scores are called “Sum of the Pairs”. MACAW can use some different, more biologically realistic set of scores. Search routine seeks only blocks in which all pairs of segments are contained in pairwise subalignments with score greater than or equal to some threshold T. T should be chosen so that a ...
... SP scores are called “Sum of the Pairs”. MACAW can use some different, more biologically realistic set of scores. Search routine seeks only blocks in which all pairs of segments are contained in pairwise subalignments with score greater than or equal to some threshold T. T should be chosen so that a ...
Slide 1
... In biological sequences, a gap is often longer than 1. For example, the insertion of a new functioning domain. A long gap may be penalized too much by the previous methods. - assign two different penalties: gap initiation penalty. gap extension penalty. Now at every position, 3 values, instead of 1, ...
... In biological sequences, a gap is often longer than 1. For example, the insertion of a new functioning domain. A long gap may be penalized too much by the previous methods. - assign two different penalties: gap initiation penalty. gap extension penalty. Now at every position, 3 values, instead of 1, ...
PPT presentation
... • Genes either are or are not homologous. • There are no degrees of homology as are there in similarity. • While it is presumed that the homologous sequences have diverged from a common ancestral sequence through iterative molecular changes we do not actually know what the ancestral sequence was. ...
... • Genes either are or are not homologous. • There are no degrees of homology as are there in similarity. • While it is presumed that the homologous sequences have diverged from a common ancestral sequence through iterative molecular changes we do not actually know what the ancestral sequence was. ...
Sequence Alignment - NIU Department of Biological Sciences
... We have been working on scoring an alignment: identities and similarities, and gap penalties. But, how do you get an alignment to score in the first place? – Trying all possibilities is one of those “more possibilities than there are atoms in the Universe” problems. The general solution: “dynamic pr ...
... We have been working on scoring an alignment: identities and similarities, and gap penalties. But, how do you get an alignment to score in the first place? – Trying all possibilities is one of those “more possibilities than there are atoms in the Universe” problems. The general solution: “dynamic pr ...
PowerPoint 簡報
... • In multiple sequence alignment, all similar sequences can be compared in one single figure or table. The basic idea is that the sequences are aligned on top of each other, so that a coordinate system is set up, where each row is the sequence for one protein, and each column is the 'same' position ...
... • In multiple sequence alignment, all similar sequences can be compared in one single figure or table. The basic idea is that the sequences are aligned on top of each other, so that a coordinate system is set up, where each row is the sequence for one protein, and each column is the 'same' position ...
Advantages/disadvantages of BLAST vs FASTA
... e. In pairwise alignment, how would you go about modifying scoring schemes to accommodate different evolutionary distances? For example, if you need to globally align two sequences, how would you modify the gap and match penalties if you knew that they were closely related? If they were more distant ...
... e. In pairwise alignment, how would you go about modifying scoring schemes to accommodate different evolutionary distances? For example, if you need to globally align two sequences, how would you modify the gap and match penalties if you knew that they were closely related? If they were more distant ...
Biology and computers
... Understand how the Smith-Waterman algorithm can be applied to perform local alignment. Have a general understanding about PAM and BLOSUM ...
... Understand how the Smith-Waterman algorithm can be applied to perform local alignment. Have a general understanding about PAM and BLOSUM ...
Lecture3_HomologyAndAlignment2014_10sept
... Assembly – (from ensembl) - When the genome of a species is to be sequenced, the chromosomes from many cells are broken at random positions into small fragments, which are sequenced, and reassembled into long sequences (contigs). Contigs may be assembled into longer sequences called scaffolds and so ...
... Assembly – (from ensembl) - When the genome of a species is to be sequenced, the chromosomes from many cells are broken at random positions into small fragments, which are sequenced, and reassembled into long sequences (contigs). Contigs may be assembled into longer sequences called scaffolds and so ...
An Introduction to Bioinformatics - E-Learning/An
... Digital sequences accepted by software Starts with greater than “>” Should be no longer than 120 characters Notepad or Fench TV ...
... Digital sequences accepted by software Starts with greater than “>” Should be no longer than 120 characters Notepad or Fench TV ...