当前位置： SCI文献检索 > COMPUTATIONAL BIOLOGY AND CHEMISTRY期刊下所有文献 > Analysis of compensatory substitution and gene evolution on the MAGEA/CSAG-palindrome of the primate X chromosomes.

Analysis of compensatory substitution and gene evolution on the MAGEA/CSAG-palindrome of the primate X chromosomes.

Abstract：

:The human X chromosome contains a large number of inverted repeat DNA palindromes. Although arbitrary substitutions destroyed the inverted repeat structure of MAGEA/CSAG-palindrome during the evolutionary process of the primates, most of the substitutions are compensatory. Using maximum parsimony, it is demonstrated that the compensatory substitutions are prone to occur between bases with similar structures on the human, chimpanzee and orangutan MAGEA/CSAG-palindromes. Furthermore, it is found that MAGEA/CSAG genes also exist in orangutan and rhesus monkey palindromes by homologous searching. This suggests that the MAGEA/CSAG-palindrome might predate the divergence of human and other primate lineages. Comparative sequence analysis of the arms and genes on the primate MAGEA/CSAG-palindromes provides possible evidence of subsequently arm to arm gene conversion. These compensatory substitutions on the MAGEA/CSAG-palindrome of the primate X chromosomes play an important role in maintaining their structural symmetry during the process of formation.

journal_name

Comput Biol Chem

journal_title

Computational biology and chemistry

authors

Qi Y,Lu H,Ai D

doi

10.1016/j.compbiolchem.2012.11.002

subject

Has Abstract

pub_date

2013-02-01 00:00:00

pages

18-22

eissn

1476-9271

issn

1476-928X

pii

S1476-9271(12)00080-1

journal_volume

42

pub_type

杂志文章

相关文献

COMPUTATIONAL BIOLOGY AND CHEMISTRY文献大全
  • The aspartate aminotransferase-like domain of Firmicutes MocR transcriptional regulators.

    abstract：:Bacterial MocR transcriptional regulators possess an N-terminal DNA-binding domain containing a conserved helix-turn-helix module and an effector-binding and/or oligomerization domain at the C-terminus, homologous to fold type-I pyridoxal 5'-phosphate (PLP) enzymes. Since a comprehensive structural analysis of the Moc...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2015.05.003

    authors： Milano T,Contestabile R,Lo Presti A,Ciccozzi M,Pascarella S

    更新日期：2015-10-01 00:00:00

  • A novel k-word relative measure for sequence comparison.

    abstract：:In order to extract phylogenetic information from DNA sequences, the new normalized k-word average relative distance is proposed in this paper. The proposed measure was tested by discriminate analysis and phylogenetic analysis. The phylogenetic trees based on the Manhattan distance measure are reconstructed with k ran...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2014.10.007

    authors： Tang J,Hua K,Chen M,Zhang R,Xie X

    更新日期：2014-12-01 00:00:00

  • Natural compounds as potential Hsp90 inhibitors for breast cancer-Pharmacophore guided molecular modelling studies.

    abstract：:Breast cancer is one of the major impediments affecting women globally. The ATP-dependant heat shock protein 90 (Hsp90) forms the central component of molecular chaperone machinery that predominantly governs the folding of newly synthesized peptides and their conformational maturation. It regulates the stability and f...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2019.107113

    authors： Rampogu S,Parate S,Parameswaran S,Park C,Baek A,Son M,Park Y,Park SJ,Lee KW

    更新日期：2019-12-01 00:00:00

  • Structure based pharmacophore study to identify possible natural selective PARP-1 trapper as anti-cancer agent.

    abstract：:Inhibition of poly(ADP-ribose) polymerase-1 (PARP-1) has turned out an innovative approach for cancer therapy due to its involvement in DNA repair pathways. Although several potent PARP-1 inhibitors have been identified, they exhibit high toxicity, resistivity and diverse pharmacological profile in clinical trials, wh...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2019.04.018

    authors： Kumar C,P T V L,Arunachalam A

    更新日期：2019-06-01 00:00:00

  • NSAMD: A new approach to discover structured contiguous substrings in sequence datasets using Next-Symbol-Array.

    abstract：:In many sequence data mining applications, the goal is to find frequent substrings. Some of these applications like extracting motifs in protein and DNA sequences are looking for frequently occurring approximate contiguous substrings called simple motifs. By approximate we mean that some mismatches are allowed during ...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2016.09.001

    authors： Pari A,Baraani A,Parseh S

    更新日期：2016-10-01 00:00:00

  • Identification of Casiopeina II-gly secondary targets through a systems pharmacology approach.

    abstract：:Casiopeinas are a group of copper-based compounds designed to be used as less toxic, more efficient chemotherapeutic agents. In this study, we analyzed the in vitro effects of Casiopeina II-gly on the expression of canonical biological pathways. Using microarray data from HeLa cell lines treated with Casiopeina II-gly...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2018.11.021

    authors： de Anda-Jáuregui G,Espinal-Enríquez J,Hur J,Alcalá-Corona SA,Ruiz-Azuara L,Hernández-Lemus E

    更新日期：2019-02-01 00:00:00

  • Conformational difference between two subunits in flavin mononucleotide binding protein dimers from Desulfovibrio vulgaris (MF): molecular dynamics simulation.

    abstract：:The structural and dynamical properties of five FMN binding protein (FBP) dimers, WT (wild type), E13K (Glu13 replaced by Lys), E13R (Glu13 replaced by Arg), E13T (Glu13 replaced by Thr) and E13Q (Glu13 replaced by Gln), were investigated using a method of molecular dynamics simulation (MDS). In crystal structures, su...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2016.05.007

    authors： Nunthaboot N,Lugsanangarm K,Pianwanit S,Kokpol S,Tanaka F,Nakanishi T,Kitamura M

    更新日期：2016-10-01 00:00:00

  • A chaotic approach to maintain the population diversity of genetic algorithm in network training.

    abstract：:The concept of chaos being radically different from statistical randomness is introduced into chemometrics research. The chaotic system that is deterministic with underlying patterns and inherent ability in searching the space of interest has been employed to improve the performance of chemometric algorithms. In this ...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/s1476-9271(02)00083-x

    authors： Lü Q,Shen G,Yu R

    更新日期：2003-07-01 00:00:00

  • Prediction and verification of microRNAs related to proline accumulation under drought stress in potato.

    abstract：:Proline is an important osmotic adjusting material greatly accumulated under drought stress and can help plant to adapt to osmotic stress. MicroRNAs (miRNAs) are small, endogenous RNAs that play important regulatory roles in plant development and stress response by negatively affecting gene expression at post-transcri...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2013.04.006

    authors： Yang J,Zhang N,Ma C,Qu Y,Si H,Wang D

    更新日期：2013-10-01 00:00:00

  • Understand the acquired resistance of RTK inhibitors by computational receptor tyrosine kinases network.

    abstract：:Receptor Tyrosine Kinase inhibitors are the most popular anti-cancer drug types. But the resistance is the major challenge. Our study on the network with 1334 proteins and their 2623 interactions which retrieved from 52 RTKs indicated that most RTKs proteins were the key controllers of the protein-protein network. Dir...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2018.07.017

    authors： Tian Y,Ma Y,Wu S,Zhang T,Li Z,Wang G,Zhang J

    更新日期：2018-10-01 00:00:00

  • Stable feature selection for biomarker discovery.

    abstract：:Feature selection techniques have been used as the workhorse in biomarker discovery applications for a long time. Surprisingly, the stability of feature selection with respect to sampling variations has long been under-considered. It is only until recently that this issue has received more and more attention. In this ...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章,评审

    doi：10.1016/j.compbiolchem.2010.07.002

    authors： He Z,Yu W

    更新日期：2010-08-01 00:00:00

  • FSDB: a frameshift signal database.

    abstract：:Programmed frameshifting is a recoding event in which a ribosome shifts reading frame by one or more nucleotides at a specific mRNA signal between overlapping genes. Programmed frameshifting is involved in the expression of many genes in a wide range of organisms, especially in viruses and bacteria. The mechanism of p...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2007.05.004

    authors： Moon S,Byun Y,Han K

    更新日期：2007-08-01 00:00:00

  • FWAVina: A novel optimization algorithm for protein-ligand docking based on the fireworks algorithm.

    abstract：:Protein-ligand docking is an essential process that has accelerated drug discovery. How to accurately and effectively optimize the predominant position and orientation of ligands in the binding pocket of a target protein is a major challenge. This paper proposed a novel ligand binding pose search method called FWAVina...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2020.107363

    authors： Li J,Song Y,Li F,Zhang H,Liu W

    更新日期：2020-10-01 00:00:00

  • A class imbalance-aware Relief algorithm for the classification of tumors using microarray gene expression data.

    abstract：:DNA microarray data has been widely used in cancer research due to the significant advantage helped to successfully distinguish between tumor classes. However, typical gene expression data usually presents a high-dimensional imbalanced characteristic, which poses severe challenge for traditional machine learning metho...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2019.03.017

    authors： He Y,Zhou J,Lin Y,Zhu T

    更新日期：2019-06-01 00:00:00

  • Immunopeptidome screening to design An immunogenic construct against PRAME positive breast cancer; An in silico study.

    abstract：BACKGROUND:Metastasis is the main cause of breast cancer (BC) lethality, especially in early stages, led to improvements in therapeutic procedures. Lately, by improvements in our perception of biological processes and immune system new classes of vaccines are emerged that grant us the opportunity of designing resolute ...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2020.107231

    authors： Afzali F,Minuchehr Z,Jahangiri S,Ranjbar MM

    更新日期：2020-04-01 00:00:00

  • BS-RNA: An efficient mapping and annotation tool for RNA bisulfite sequencing data.

    abstract：:Cytosine methylation is one of the most important RNA epigenetic modifications. With the development of experimental technology, scientists attach more importance to RNA cytosine methylation and find bisulfite sequencing is an effective experimental method for RNA cytosine methylation study. However, there are only a ...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2016.09.003

    authors： Liang F,Hao L,Wang J,Shi S,Xiao J,Li R

    更新日期：2016-12-01 00:00:00

  • Dynamics of p53 and Wnt cross talk.

    abstract：:We present the mechanism of interaction of Wnt network module, which is responsible for periodic somitogenesis, with p53 regulatory network, which is one of the main regulators of various cellular functions, and switching of various oscillating states by investigating p53-Wnt model. The variation in Nutlin concentrati...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2015.07.014

    authors： Zubbair Malik M,Ali S,Alam MJ,Ishrat R,Brojen Singh RK

    更新日期：2015-12-01 00:00:00

  • Discovery of potential inhibitor against human acetylcholinesterase: a molecular docking and molecular dynamics investigation.

    abstract：:Alzheimer's disease (AD) is a progressive neurodegenerative disease of central nervous system among elderly people. Human acetylcholinesterase (hAChE), an important enzyme in neuronal signaling, is responsible for the degradation of acetylcholine which in turn prevents the post synaptic signal transmissions. hAChE has...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2017.04.002

    authors： Singh SP,Gupta D

    更新日期：2017-06-01 00:00:00

  • WITHDRAWN: Identification of microRNA precursor based on gapped n-tuple structure status composition kernel.

    abstract：:This article has been withdrawn at the request of the author(s) and/or editor. The Publisher apologizes for any inconvenience this may cause. The full Elsevier Policy on Article Withdrawal can be found at http://www.elsevier.com/locate/withdrawalpolicy. ...

    journal_title：Computational biology and chemistry

    pub_type： 撤回出版物

    doi：10.1016/j.compbiolchem.2016.02.010

    authors： Liu B,Fang L

    更新日期：2016-02-17 00:00:00

  • Statistical models in assessing fold change of gene expression in real-time RT-PCR experiments.

    abstract：:Real-time RT-PCR has been frequently used in quantitative research in molecular biology and bioinformatics. It provides remarkably useful technology to assess expression of genes. Although mathematical models for gene amplification process have been studied, statistical models and methods for data analysis in real-tim...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2005.10.005

    authors： Fu WJ,Hu J,Spencer T,Carroll R,Wu G

    更新日期：2006-02-01 00:00:00

  • Identification of epilepsy from intracranial EEG signals by using different neural network models.

    abstract：:In this work, a framework is provided for identifying intracranial electroencephalography (iEEG) seizures based on discrete wavelet transform (DWT) analysis of iEEG signals using forward propagation and feedback neural networks. The performance of 5 different data sets combination classifications is studied using the ...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2020.107310

    authors： Gong C,Zhang X,Niu Y

    更新日期：2020-06-19 00:00:00

  • Theoretical studies and NMR assay of coumarins and neoflavanones derivatives as potential inhibitors of acetylcholinesterase.

    abstract：:Currently Alzheimer's disease (AD) is a devastating neurological disorder that mainly affects the elderly. The treatment of AD has as main objective to increase the levels of ACh in the synaptic cleft by inhibiting the cholinesterase enzymes, which are responsible for the degradation of ACh. Twenty one synthesized cou...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2020.107293

    authors： de Souza LG,Moraes PF,Leão RAC,Costa PRR,Soares RO,Pascutti PG,Figueroa-Villar JD,Rennó MN

    更新日期：2020-05-29 00:00:00

  • Comprehensive comparison of two protein family of P-ATPases (13A1 and 13A3) in insects.

    abstract：:The P-type ATPases (P-ATPases) are present in all living cells where they mediate ion transport across membranes on the expense of ATP hydrolysis. Different ions which are transported by these pumps are protons like calcium, sodium, potassium, and heavy metals such as manganese, iron, copper, and zinc. Maintenance of ...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2017.04.006

    authors： Seddigh S

    更新日期：2017-06-01 00:00:00

  • Cryptic tRNAs in chaetognath mitochondrial genomes.

    abstract：:The chaetognaths constitute a small and enigmatic phylum of little marine invertebrates. Both nuclear and mitochondrial genomes have numerous originalities, some phylum-specific. Until recently, their mitogenomes seemed containing only one tRNA gene (trnMet), but a recent study found in two chaetognath mitogenomes two...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2016.04.007

    authors： Barthélémy RM,Seligmann H

    更新日期：2016-06-01 00:00:00

  • Markovian encoding models in human splice site recognition using SVM.

    abstract：:Splice site recognition is among the most significant and challenging tasks in bioinformatics due to its key role in gene annotation. Effective prediction of splice site requires nucleotide encoding methods that reveal the characteristics of DNA sequences to provide appropriate features to serve as input of machine le...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2018.02.005

    authors： Pashaei E,Aydin N

    更新日期：2018-04-01 00:00:00

  • Genome-wide predicting disease-related protein complexes by walking on the heterogeneous network based on data integration and laplacian normalization.

    abstract：BACKGROUND:Associating protein complexes to human inherited diseases is critical for better understanding of biological processes and functional mechanisms of the disease. Many protein complexes have been identified and functionally annotated by computational and purification methods so far, however, the particular rol...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2017.04.007

    authors： Liu Z,Luo J

    更新日期：2017-08-01 00:00:00

  • Automated prediction of three-way junction topological families in RNA secondary structures.

    abstract：:We present an algorithm for automatically predicting the topological family of any RNA three-way junction, given only the information from the secondary structure: the sequence and the Watson-Crick pairings. The parameters of the algorithm have been determined on a data set of 33 three-way junctions whose 3D conformat...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2011.11.001

    authors： Lamiable A,Barth D,Denise A,Quessette F,Vial S,Westhof E

    更新日期：2012-04-01 00:00:00

  • Hybrid docking-QSAR studies of DPP-IV inhibition activities of a series of aminomethyl-piperidones.

    abstract：:In this study, the dipeptidyl peptidase-IV (DPP-IV) inhibition activities of a series of novel aminomethyl-piperidones were investigated by molecular docking studies and modeled by quantitative structure-activity relationship (QSAR) methodology. Molecular docking studies were used to find the best conformations of the...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2016.08.003

    authors： Amini Z,Fatemi MH,Gharaghani S

    更新日期：2016-10-01 00:00:00

  • Pharmacoinformatics exploration of polyphenol oxidases leading to novel inhibitors by virtual screening and molecular dynamic simulation study.

    abstract：:Polyphenol oxidases (PPOs)/tyrosinases are metal-dependent enzymes and known as important targets for melanogenesis. Although considerable attempts have been conducted to control the melanin-associated diseases by using various inhibitors. However, the exploration of the best anti-melanin inhibitor without side effect...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2017.02.012

    authors： Hassan M,Abbas Q,Ashraf Z,Moustafa AA,Seo SY

    更新日期：2017-06-01 00:00:00

  • Exploiting the performance of dictionary-based bio-entity name recognition in biomedical literature.

    abstract：:Bio-entity name recognition is the key step for information extraction from biomedical literature. This paper presents a dictionary-based bio-entity name recognition approach. The approach expands the bio-entity name dictionary via the Abbreviation Definitions identifying algorithm, improves the recall rate through th...

    journal_title：Computational biology and chemistry

    pub_type： 杂志文章

    doi：10.1016/j.compbiolchem.2008.03.008

    authors： Yang Z,Lin H,Li Y

    更新日期：2008-08-01 00:00:00