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81.
Error minimization explains the codon usage of highly expressed genes in Escherichia coli 总被引:1,自引:0,他引:1
Different organisms use synonymous codons with different preferences. Several measures have been introduced to compute the extent of codon usage bias within a gene or genome, among which the codon adaptation index (CAI) has been shown to be well correlated with mRNA levels of Escherichia coli. In this work an error adaptation index (eAI) is introduced, which estimates the level at which a gene can tolerate the effects of mistranslations. It is shown that the eAI has a strong correlation with CAI, as well as with mRNA levels, which suggests that the codons of highly expressed genes are selected so that mistranslation would have the minimum possible effect on the structure and function of the related proteins. 相似文献
82.
83.
Yousefi Fatemeh Najafi Hadi Behmanesh Mehrdad Soltani Bahram M. 《Molecular biology reports》2022,49(5):3377-3387
Molecular Biology Reports - Aberrant activation of the Wnt signaling pathway is observed in most colorectal cancers (CRC). OCC-1D is a splice variant of OCC-1 gene which is considered as a long... 相似文献
84.
Nazari Mansoureh Tohidfar Masoud Ramshini Hossein Vahdati Kourosh 《Molecular biology reports》2022,49(1):433-441
Molecular Biology Reports - Soil drought stress is a limiting factor of productivity in walnut (Juglans regia L). Ferredoxin (Fd) level decreases under adverse environmental stress. Functional... 相似文献
85.
Ghorbanpour Monireh Soltani Behzad Mota Ali Jahanbin Sardroodi Jaber Mehdizadeh Aghdam Elnaz Shayanfar Ali Molavi Ommoleila Mohammad-Rezaei Rahim Ebadi-Nahari Mostafa Ziegler Christopher J. 《Biometals》2022,35(5):1095-1111
BioMetals - A group of bidentate nitrogen and sulfur donor pyrazole derivative ligands abbreviated as Na[RNCS(Pz)], Na[RNCS(PzMe2)], Na[RNCS(PzMe3)], Na[RNCS(PzPhMe)], Na[RNCS(PzPh2)], where... 相似文献
86.
BioMetals - Small molecules have potential usage in cancer therapy due to their remarkable potency of disarranging the natural structure of nucleic acids. In this study, two complexes... 相似文献
87.
Michael Garton Hamed S. Najafabadi Frank W. Schmitges Ernest Radovani Timothy R. Hughes Philip M. Kim 《Nucleic acids research》2015,43(19):9147-9157
Development of an accurate protein–DNA recognition code that can predict DNA specificity from protein sequence is a central problem in biology. C2H2 zinc fingers constitute by far the largest family of DNA binding domains and their binding specificity has been studied intensively. However, despite decades of research, accurate prediction of DNA specificity remains elusive. A major obstacle is thought to be the inability of current methods to account for the influence of neighbouring domains. Here we show that this problem can be addressed using a structural approach: we build structural models for all C2H2-ZF–DNA complexes with known binding motifs and find six distinct binding modes. Each mode changes the orientation of specificity residues with respect to the DNA, thereby modulating base preference. Most importantly, the structural analysis shows that residues at the domain interface strongly and predictably influence the binding mode, and hence specificity. Accounting for predicted binding mode significantly improves prediction accuracy of predicted motifs. This new insight into the fundamental behaviour of C2H2-ZFs has implications for both improving the prediction of natural zinc finger-binding sites, and for prioritizing further experiments to complete the code. It also provides a new design feature for zinc finger engineering. 相似文献
88.
Inhibitory Effect of Hsa‐miR‐590‐5p on Cardiosphere‐derived Stem Cells Differentiation Through Downregulation of TGFB Signaling
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89.
Masoud Zamani Esteki Eftychia Dimitriadou Ligia Mateiu Cindy Melotte Niels Van der Aa Parveen Kumar Rakhi Das Koen Theunis Jiqiu Cheng Eric Legius Yves Moreau Sophie Debrock Thomas D’Hooghe Pieter Verdyck Martine De Rycke Karen Sermon Joris R. Vermeesch Thierry Voet 《American journal of human genetics》2015,96(6):894-912
Methods for haplotyping and DNA copy-number typing of single cells are paramount for studying genomic heterogeneity and enabling genetic diagnosis. Before analyzing the DNA of a single cell by microarray or next-generation sequencing, a whole-genome amplification (WGA) process is required, but it substantially distorts the frequency and composition of the cell’s alleles. As a consequence, haplotyping methods suffer from error-prone discrete SNP genotypes (AA, AB, BB) and DNA copy-number profiling remains difficult because true DNA copy-number aberrations have to be discriminated from WGA artifacts. Here, we developed a single-cell genome analysis method that reconstructs genome-wide haplotype architectures as well as the copy-number and segregational origin of those haplotypes by employing phased parental genotypes and deciphering WGA-distorted SNP B-allele fractions via a process we coin haplarithmisis. We demonstrate that the method can be applied as a generic method for preimplantation genetic diagnosis on single cells biopsied from human embryos, enabling diagnosis of disease alleles genome wide as well as numerical and structural chromosomal anomalies. Moreover, meiotic segregation errors can be distinguished from mitotic ones. 相似文献
90.
Co‐culture of bone marrow‐derived mesenchymal stem cells overexpressing lipocalin 2 with HK‐2 and HEK293 cells protects the kidney cells against cisplatin‐induced injury
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