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Linclust: [8] first algorithm whose runtime scales linearly with input set size, very fast, part of MMseqs2 [9] software suite for fast, sensitive sequence searching and clustering of large sequence sets; TribeMCL: a method for clustering proteins into related groups [10] BAG: a graph theoretic sequence clustering algorithm [11]
HHpred servers have been ranked among the best servers during CASP7, 8, and 9, for blind protein structure prediction experiments. In CASP9, HHpredA, B, and C were ranked 1st, 2nd, and 3rd out of 81 participating automatic structure prediction servers in template-based modeling [ 11 ] and 6th, 7th, 8th on all 147 targets, while being much ...
CD1a (Cluster of Differentiation 1a), or T-cell surface glycoprotein CD1a, is a human protein encoded by the CD1A gene. An antigen-presenting protein that binds self and non-self lipid and glycolipid antigens and presents them to T-cell receptors on natural killer T-cells. CD1b: T-cell surface glycoprotein CD1b.
A profile HMM modelling a multiple sequence alignment. HMMER is a free and commonly used software package for sequence analysis written by Sean Eddy. [2] Its general usage is to identify homologous protein or nucleotide sequences, and to perform sequence alignments.
The average silhouette of the data is another useful criterion for assessing the natural number of clusters. The silhouette of a data instance is a measure of how closely it is matched to data within its cluster and how loosely it is matched to data of the neighboring cluster, i.e., the cluster whose average distance from the datum is lowest. [8]
An alpha-helix with hydrogen bonds (yellow dots) The α-helix is the most abundant type of secondary structure in proteins. The α-helix has 3.6 amino acids per turn with an H-bond formed between every fourth residue; the average length is 10 amino acids (3 turns) or 10 Å but varies from 5 to 40 (1.5 to 11 turns).
Consensus clustering is a method of aggregating (potentially conflicting) results from multiple clustering algorithms.Also called cluster ensembles [1] or aggregation of clustering (or partitions), it refers to the situation in which a number of different (input) clusterings have been obtained for a particular dataset and it is desired to find a single (consensus) clustering which is a better ...
The Swanson, Nolan and Pelham Teacher and Parent Rating Scale (SNAP), developed by James Swanson, Edith Nolan and William Pelham, is a 90-question self-report inventory designed to measure attention deficit hyperactivity disorder (ADHD) and oppositional defiant disorder (ODD) symptoms in children and young adults. [1]