Wyniki wyszukiwania

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FunPred-1: Protein function prediction from a protein interaction network using neighborhood analysis

100%

Saha S., Chatterjee P., Basu S., Kundu M., Nasipuri M.

Cellular and Molecular Biology Letters

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2014

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tom 19

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nr 4

Proteins are responsible for all biological activities in living organisms. Thanks to genome sequencing projects, large amounts of DNA and protein sequence data are now available, but the biological functions of many proteins are still not annotated in most cases. The unknown function of such non-annotated proteins may be inferred or deduced from their neighbors in a protein interaction network. In this paper, we propose two new methods to predict protein functions based on network neighborhood properties. FunPred 1.1 uses a combination of three simple-yet-effective scoring techniques: the neighborhood ratio, the protein path connectivity and the relative functional similarity. FunPred 1.2 applies a heuristic approach using the edge clustering coefficient to reduce the search space by identifying densely connected neighborhood regions. The overall accuracy achieved in FunPred 1.2 over 8 functional groups involving hetero-interactions in 650 yeast proteins is around 87%, which is higher than the accuracy with FunPred 1.1. It is also higher than the accuracy of many of the state-of-the-art protein function prediction methods described in the literature. The test datasets and the complete source code of the developed software are now freely available at http://code.google.com/p/cmaterbioinfo/.

2

Scanning the proteome for targets of kinase inhibitors using bi-functional receptor ligands

86%

Kley N.

Cellular and Molecular Biology Letters

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2005

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tom 10

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nr Suppl.2

3

Molecular properties of cAMP-dependent protein kinase catalytic subunit: structural aspects of activity and inhibition

86%

Bossemeyer D.

Cellular and Molecular Biology Letters

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1998

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tom 03

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nr 3

4

Artificially engineered specific nucleases - a breakthrough in RE research - Review

86%

Cesnaviciene E.

Biotechnologia

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2003

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nr 2

5

Artykuł dostępny w postaci pełnego tekstu - kliknij by otworzyć plik

Novel roles for glutathione in linking oxidative stress to phytohormone-dependent signalling

72%

Noctor G., Han Y., Chaouch S., Mhamdi A.

BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology

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2013

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tom 94

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nr 2

6

A short review on proteomics and its applications

72%

Chandrasekhar K., Dileep A., Lebonah D. E., Pramoda Kumari J.

International Letters of Natural Sciences

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2014

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tom 12

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nr 1

Proteomics is the large scale of study of proteins, particularly their function and structure. Proteomics is an excellent approach for studying changes in metabolism in response to different stress conditions. In the present review focused on different types of techniques for the analysis of expressed proteins. The techniques includes 2-D gel electrophoresis, MALDI-TOF/MS etc., play a vital role for the analysis of novel proteins and their role in disease maintenance and treatment. The review also concentrated on applicative perspective of proteomics in the fields of biomedical, agriculture and food.

7

Non-random base composition in codons of mitochondrial cytochrome b gene in veterbrates

72%

Prusak B., Grzybowski T.

Acta Biochimica Polonica

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2004

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tom 51

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nr 4

Cytochrome b is the central catalytic subunit of the quinol : cytochrome c oxidoreductase of complex III of the mitochondrial oxidative phosphorylation system and is essential to the viability of most eukaryotic cells. Partial cytochrome b gene sequences of 14 species representing mammals, birds, reptiles and amphibians are presented here including some species typical for Poland. For the analysed species a comparative analysis of the natural variation in the gene was performed. This information has been used to discuss some aspects of gene sequence — protein function relationships. Review of relevant literature indicates that similar comparisons have been made only for basic mammalian species. Moreover, there is little information about the Polish-specific species. We observed that there is a strong non-random distribution of nucleotides in the cytochrome b sequence in all tested species with the highest differences at the third codon position. This is also the codon position of the strongest compositional bias. Some tested species, representing distant systematic groups, showed unique base composition differing from the others. The quail, frog, python and elk prefer C over A in the light DNA strand. Species belonging to the ar- tiodactyls stand out from the remaining ones and contain fewer pyrimidines. The observed overall rate of amino acid identity is about 61%. The region covering Qo center as well as histidines 82 and 96 (heme ligands) are totally conserved in all tested species. Additionally, the applied method and the sequences can also be used for diagnostic species identification by veterinary and conservation agencies.

8

On the biological relevance of alternative splicing in plants: dual function of an Arabidopsis membrane transporter

58%

Doque P.

BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology

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2013

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tom 94

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nr 3

9

Muscle proteins and their changes in the process of meat tenderization

58%

Pospiech E., Grzes B., Lyczynski A., Borzuta K., Szalata M., Mikolajczak B.

Animal Science Papers and Reports. Supplement

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2003

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tom 21

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nr 1

10

Extrahepatic synthesis of acute phase proteins and their functions

51%

Aldred A. R., Southwell B., Schreiber G.

Folia Histochemica et Cytobiologica

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1992

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tom 30

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nr 4

Ograniczanie wyników

FunPred-1: Protein function prediction from a protein interaction network using neighborhood analysis

Scanning the proteome for targets of kinase inhibitors using bi-functional receptor ligands

Molecular properties of cAMP-dependent protein kinase catalytic subunit: structural aspects of activity and inhibition

Artificially engineered specific nucleases - a breakthrough in RE research - Review

Novel roles for glutathione in linking oxidative stress to phytohormone-dependent signalling

A short review on proteomics and its applications

Non-random base composition in codons of mitochondrial cytochrome b gene in veterbrates

On the biological relevance of alternative splicing in plants: dual function of an Arabidopsis membrane transporter

Muscle proteins and their changes in the process of meat tenderization

Extrahepatic synthesis of acute phase proteins and their functions