共查询到20条相似文献,搜索用时 15 毫秒
1.
Background
In the post-genomic era, correct gene prediction has become one of the biggest challenges in genome annotation. Improved promoter prediction methods can be one step towards developing more reliable ab initio gene prediction methods. This work presents a novel prokaryotic promoter prediction method based on DNA stability. 相似文献2.
Background
Promoter prediction is an integrant step for understanding gene regulation and annotating genomes. Traditional promoter analysis is mainly based on sequence compositional features. Recently, many kinds of structural features have been employed in promoter prediction. However, considering the high-dimensionality and overfitting problems, it is unfeasible to utilize all available features for promoter prediction. Thus it is necessary to choose some appropriate features for the prediction task. 相似文献3.
Michael Hackenberg Christopher Previti Pedro Luis Luque-Escamilla Pedro Carpena José Martínez-Aroza José L Oliver 《BMC bioinformatics》2006,7(1):446-13
Background
Despite their involvement in the regulation of gene expression and their importance as genomic markers for promoter prediction, no objective standard exists for defining CpG islands (CGIs), since all current approaches rely on a large parameter space formed by the thresholds of length, CpG fraction and G+C content. 相似文献4.
Firoz Anwar Syed Murtuza Baker Taskeed Jabid Md Mehedi Hasan Mohammad Shoyaib Haseena Khan Ray Walshe 《BMC bioinformatics》2008,9(1):414
Background
Eukaryotic promoter prediction using computational analysis techniques is one of the most difficult jobs in computational genomics that is essential for constructing and understanding genetic regulatory networks. The increased availability of sequence data for various eukaryotic organisms in recent years has necessitated for better tools and techniques for the prediction and analysis of promoters in eukaryotic sequences. Many promoter prediction methods and tools have been developed to date but they have yet to provide acceptable predictive performance. One obvious criteria to improve on current methods is to devise a better system for selecting appropriate features of promoters that distinguish them from non-promoters. Secondly improved performance can be achieved by enhancing the predictive ability of the machine learning algorithms used. 相似文献5.
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Background
Despite extensive efforts devoted to predicting protein-coding genes in genome sequences, many bona fide genes have not been found and many existing gene models are not accurate in all sequenced eukaryote genomes. This situation is partly explained by the fact that gene prediction programs have been developed based on our incomplete understanding of gene feature information such as splicing and promoter characteristics. Additionally, full-length cDNAs of many genes and their isoforms are hard to obtain due to their low level or rare expression. In order to obtain full-length sequences of all protein-coding genes, alternative approaches are required. 相似文献8.
Background
Modification of leaf traits in sugar beet requires a strong leaf specific promoter. With such a promoter, expression in taproots can be avoided which may otherwise take away available energy resources for sugar accumulation. 相似文献9.
Raffaella Di Lisi Anne Picard Simonetta Ausoni Stefano Schiaffino 《BMC molecular biology》2007,8(1):78
Background
We reported previously that the cardiac troponin I (cTnI) promoter drives cardiac-specific expression of reporter genes in cardiac muscle cells and in transgenic mice, and that disruption of GATA elements inactivates the cTnI promoter in cultured cardiomyocytes. We have now examined the role of cTnI promoter GATA elements in skeletal muscle cells. 相似文献10.
Victor X Jin Gregory AC Singer Francisco J Agosto-Pérez Sandya Liyanarachchi Ramana V Davuluri 《BMC bioinformatics》2006,7(1):114-13
Background
The canonical core promoter elements consist of the TATA box, initiator (Inr), downstream core promoter element (DPE), TFIIB recognition element (BRE) and the newly-discovered motif 10 element (MTE). The motifs for these core promoter elements are highly degenerate, which tends to lead to a high false discovery rate when attempting to detect them in promoter sequences. 相似文献11.
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Background
Uromodulin is the most abundant protein found in the urine of mammals. In an effort to utilize the uromodulin promoter in order to target recombinant proteins in the urine of transgenic animals we have cloned a goat uromodulin gene promoter fragment (GUM promoter) and used it to drive expression of GFP in the kidney of transgenic mice. 相似文献13.
Rogelio J Palomino-Morales Tomas R Vazquez-Rodriguez Orlando Torres Inmaculada C Morado Santos Castañeda Jose A Miranda-Filloy Jose L Callejas-Rubio Benjamin Fernandez-Gutierrez Miguel A Gonzalez-Gay Javier Martin 《Arthritis research & therapy》2010,12(2):R51
Introduction
The objective was to investigate the potential implication of the IL18 gene promoter polymorphisms in the susceptibility to giant-cell arteritis (GCA). 相似文献14.
Improved residue contact prediction using support vector machines and a large feature set 总被引:2,自引:0,他引:2
Background
Predicting protein residue-residue contacts is an important 2D prediction task. It is useful for ab initio structure prediction and understanding protein folding. In spite of steady progress over the past decade, contact prediction remains still largely unsolved. 相似文献15.
Isao Oishi Sungtae Kim Kyoko Yoshii Concepcion Rodriguez Esteban Juan Carlos Izpisua Belmonte 《BMC biotechnology》2011,11(1):5
Background
A promoter capable of driving high-level transgene expression in oviduct cells is important for developing transgenic chickens capable of producing therapeutic proteins, including monoclonal antibodies (mAbs), in the whites of laid eggs. Ovalbumin promoters can be used as oviduct-specific regulatory sequences in transgenic chickens, but their promoter activities are not high, according to previous reports. 相似文献16.
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Background
The accurate prediction of enzyme-substrate interaction energies is one of the major challenges in computational biology. This study describes the improvement of protein-ligand binding energy prediction by incorporating protein flexibility through the use of molecular dynamics (MD) simulations. 相似文献18.
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