Functional classification of protein 3D structures from predicted local interaction sites [0.03%]
基于预测局部作用位点的蛋白质三维结构功能分类
Ramya Parasuram,Joslynn S Lee,Pengcheng Yin et al.
Ramya Parasuram et al.
A new approach to the functional classification of protein 3D structures is described with application to some examples from structural genomics. This approach is based on functional site prediction with THEMATICS and POOL. THEMATICS employ...
Xing-Ming Zhao,Yixue Li,Ming Li et al.
Xing-Ming Zhao et al.
John O&#x;Quigley
John O&#x;Quigley
Clonal dominance in hematopoietic stem cell populations is an important question of interest but not one we can directly answer. Any estimates are based on indirect measurement. For marked populations, we can equate empirical and theoretica...
Petr Sulc,Andreas Wagner,Olivier C Martin
Petr Sulc
We re-examine the evolutionary dynamics of RNA secondary structures under directional selection towards an optimum RNA structure. We find that the punctuated equilibria lead to a very slow approach to the optimum, following on average an in...
Bioinformatic analysis of the neutrality of RNA secondary structure elements across genotypes reveals evidence for direct evolution of genetic robustness in HCV [0.03%]
生物信息学分析发现不同基因型RNA二级结构单元的中性进化并揭示HCV遗传鲁棒性的直接进化证据
Alexander Churkin,Moriah Cohen,Yonat Shemer-Avni et al.
Alexander Churkin et al.
The properties and origin of genetic robustness have recently been investigated in several works that examined microRNA stem-loop structures, and a variety of conclusions have been reached without agreement. Considering that this is a unive...
Short prokaryotic DNA fragment binning using a hierarchical classifier based on linear discriminant analysis and principal component analysis [0.03%]
基于线性判别分析和主成分分析的层次分类器的短片段基因组-bin划分方法研究
Hao Zheng,Hongwei Wu
Hao Zheng
Metagenomics is an emerging field in which the power of genomic analysis is applied to an entire microbial community, bypassing the need to isolate and culture individual microbial species. Assembling of metagenomic DNA fragments is very mu...
ADEPTS: advanced peptide de novo sequencing with a pair of tandem mass spectra [0.03%]
基于一组串联质谱的蛋白质从头测序方法(ADEPTS)
Lin He,Bin Ma
Lin He
De novo sequencing is an important task in proteomics to identify novel peptide sequences. Traditionally, only one MS/MS spectrum is used for the sequencing of a peptide; however, the use of multiple spectra of the same peptide with differe...
Vandanaben Patel,Jason T L Wang,Shefali Setia et al.
Vandanaben Patel et al.
We present a method, called BlockMatch, for aligning two blocks, where a block is an RNA multiple sequence alignment with the consensus secondary structure of the alignment in Stockholm format. The method employs a quadratic-time dynamic pr...
Multi-factorial analysis of class prediction error: estimating optimal number of biomarkers for various classification rules [0.03%]
多因素分析分类预测错误：估计各种分类规则的理想生物标志物数量
Mizanur R Khondoker,Till T Bachmann,Muriel Mewissen et al.
Mizanur R Khondoker et al.
Machine learning and statistical model based classifiers have increasingly been used with more complex and high dimensional biological data obtained from high-throughput technologies. Understanding the impact of various factors associated w...
Identification of functional modules in a PPI network by bounded diameter clustering [0.03%]
基于有界直径聚类的PPI网络功能模块识别方法
Nassim Sohaee,Christian V Forst
Nassim Sohaee
Dense subgraphs of Protein-Protein Interaction (PPI) graphs are assumed to be potential functional modules and play an important role in inferring the functional behavior of proteins. Increasing amount of available PPI data implies a fast, ...