The generalised k-Truncated Suffix Tree for time-and space-efficient searches in multiple DNA or protein sequences [0.03%]
用于多DNA或蛋白质序列的时间和空间高效搜索的广义k-截断后缀树
Marcel H Schulz,Sebastian Bauer,Peter N Robinson
Marcel H Schulz
Efficient searching for specific subsequences in a set of longer sequences is an important component of many bioinformatics algorithms. Generalised suffix trees and suffix arrays allow searches for a pattern of length n in time proportional...
Extracting Protein-Protein Interactions from MEDLINE using the Hidden Vector State model [0.03%]
基于隐藏向量状态模型的MEDLINE文献中蛋白质相互作用的挖掘方法研究
Deyu Zhou,Yulan He,Chee Keong Kwoh
Deyu Zhou
A major challenge in text mining for biomedicine is automatically extracting protein-protein interactions from the vast amount of biomedical literature. We have constructed an information extraction system based on the Hidden Vector State (...
Yong Li,Xiujuan Chen,Saeid Belkasim et al.
Yong Li et al.
Fast and accurate 3D object reconstruction and partial 3D component retrieval from 2D image slices represent a difficult and challenging problem. To group related objects on different layers in an image stack, image segmentation and sequent...
CARIBIAM: constrained Association Rules using Interactive Biological IncrementAl Mining [0.03%]
基于生物增量交互约束的关联规则挖掘算法
Imad Rahal,Riad Rahhal,Baoying Wang et al.
Imad Rahal et al.
This paper analyses annotated genome data by applying a very central data-mining technique known as Association Rule Mining (ARM) with the aim of discovering rules and hypotheses capable of yielding deeper insights into this type of data. I...
A matrix-based multilevel approach to identify functional protein modules [0.03%]
基于矩阵的多层次方法识别功能蛋白质模块
Suely Oliveira,Sang-Cheol Seok
Suely Oliveira
Identifying functional modules is believed to reveal most cellular processes. There have been many computational approaches to investigate the underlying biological structures (Bader and Hogue, 2003; Dhillon et al., 2005; Krogan et al., 200...
Classification of proteomic data with multiclass Logistic Partial Least Squares algorithm [0.03%]
基于Logistic偏最小二乘算法的蛋白质组数据多分类方法
Zhenqiu Liu,Dechang Chen,Jianjun Paul Tian
Zhenqiu Liu
Early detection of cancer is crucial for successful treatments. In this paper, we propose a multiclass Logistic Partial Least Squares (LPLS) algorithm for classification of normal vs. cancer using Mass Spectrometry (MS). LPLS combines the m...
Amandeep S Sidhu,Tharam S Dillon,Elizabeth Chang et al.
Amandeep S Sidhu et al.
Conservative adjustment of permutation p-values when the number of permutations is limited [0.03%]
限制情况下排列校正p值的保守调整方法
Yinglei Lai
Yinglei Lai
In this study, we show through the theory of order statistics that a considerable proportion of p-values will be under-evaluated by the permutation procedure. To solve this problem, we propose to conservatively adjust permutation p-values. ...
A study of the repetitive structure and distribution of short motifs in human genomic sequences [0.03%]
人类基因组序列中短基元的重复结构及分布规律的研究
Abanish Singh,Cedric Feschotte,Nikola Stojanovic
Abanish Singh
Over the last several years the search for functional genomic elements by exploiting motif over-representation became increasingly popular. However, about half of the human genome is repetitive, and that is also the case with most higher eu...
Evolutionary selective pressure on three mitochondrial SNPs is consistent with their influence on metabolic efficiency in Pima Indians [0.03%]
三个与皮马印第安人的代谢效率有关的线粒体多态性进化的选择压力一致性分析
Srikar Chamala,Wesley A Beckstead,Mark J Rowe et al.
Srikar Chamala et al.
We investigated whether the effect of evolutionary selection on three recent Single Nucleotide Polymorphisms (SNPs) in the mitochondrial sub-haplogroups of Pima Indians is consistent with their effects on metabolic efficiency. The mitochond...