Literature DB >> 14697521

Base composition and expression level of human genes.

Stilianos Arhondakis1, Fabio Auletta, Giuseppe Torelli, Giuseppe D'Onofrio.   

Abstract

It is well known that the gene distribution is non-uniform in the human genome, reaching the highest concentration in the GC-rich isochores. Also the amino acid frequencies, and the hydrophobicity, of the corresponding encoded proteins are affected by the high GC level of the genes localized in the GC-rich isochores. It was hypothesized that the gene expression level as well is higher in GC-rich compared to GC-poor isochores [Mol. Biol. Evol. 10 (1993) 186]. Several features of human genes and proteins, namely expression level, coding and non-coding lengths, and hydrophobicity were investigated in the present paper. The results support the hypothesis reported above, since all the parameters so far studied converge to the same conclusion, that the average expression level of the GC-rich genes is significantly higher than that of the GC-poor genes.

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Year:  2004        PMID: 14697521     DOI: 10.1016/j.gene.2003.10.009

Source DB:  PubMed          Journal:  Gene        ISSN: 0378-1119            Impact factor:   3.688


  14 in total

1.  Relationships among stop codon usage bias, its context, isochores, and gene expression level in various eukaryotes.

Authors:  Jingchun Sun; Ming Chen; Jinlin Xu; Jianhua Luo
Journal:  J Mol Evol       Date:  2005-09-13       Impact factor: 2.395

2.  High rate of chimeric gene origination by retroposition in plant genomes.

Authors:  Wen Wang; Hongkun Zheng; Chuanzhu Fan; Jun Li; Junjie Shi; Zhengqiu Cai; Guojie Zhang; Dongyuan Liu; Jianguo Zhang; Søren Vang; Zhike Lu; Gane Ka-Shu Wong; Manyuan Long; Jun Wang
Journal:  Plant Cell       Date:  2006-07-07       Impact factor: 11.277

3.  A new chromosome fluorescence banding technique combining DAPI staining with image analysis in plants.

Authors:  Jing Yu Liu; Chao Wen She; Zhong Li Hu; Zhi Yong Xiong; Li Hua Liu; Yun Chun Song
Journal:  Chromosoma       Date:  2004-06-09       Impact factor: 4.316

4.  Synonymous codon usage in different protein secondary structural classes of human genes: implication for increased non-randomness of GC3 rich genes towards protein stability.

Authors:  Pamela Mukhopadhyay; Surajit Basak; Tapash Chandra Ghosh
Journal:  J Biosci       Date:  2007-08       Impact factor: 1.826

5.  Transcriptome map of mouse isochores.

Authors:  Stilianos Arhondakis; Kimon Frousios; Costas S Iliopoulos; Solon P Pissis; German Tischler; Sophia Kossida
Journal:  BMC Genomics       Date:  2011-10-17       Impact factor: 3.969

6.  Exploring the gonad transcriptome of two extreme male pigs with RNA-seq.

Authors:  Anna Esteve-Codina; Robert Kofler; Nicola Palmieri; Giovanni Bussotti; Cedric Notredame; Miguel Pérez-Enciso
Journal:  BMC Genomics       Date:  2011-11-08       Impact factor: 3.969

7.  Correlation and prediction of gene expression level from amino acid and dipeptide composition of its protein.

Authors:  Gajendra P S Raghava; Joon H Han
Journal:  BMC Bioinformatics       Date:  2005-03-17       Impact factor: 3.169

8.  Differential selective constraints shaping codon usage pattern of housekeeping and tissue-specific homologous genes of rice and arabidopsis.

Authors:  Pamela Mukhopadhyay; Surajit Basak; Tapash Chandra Ghosh
Journal:  DNA Res       Date:  2008-09-30       Impact factor: 4.458

9.  The footprint of metabolism in the organization of mammalian genomes.

Authors:  Luisa Berná; Ankita Chaurasia; Claudia Angelini; Concetta Federico; Salvatore Saccone; Giuseppe D'Onofrio
Journal:  BMC Genomics       Date:  2012-05-08       Impact factor: 3.969

10.  Do Alu repeats drive the evolution of the primate transcriptome?

Authors:  Araxi O Urrutia; Leandro Balladares Ocaña; Laurence D Hurst
Journal:  Genome Biol       Date:  2008-02-01       Impact factor: 13.583

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