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Computational evaluation of bioactive compounds in Curcuma zanthorrhiza targeting SIRT1 and NFκB

100%

Prasetyawan S., Safitri A., Atho'illah M. F., Rahayu S.

BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology

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2023

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tom 104

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nr 2

2

Computational analysis of alternative spliced genes on maize chromosome 1

72%

Gracz J., Swiercz A., Twardowski T.

BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology

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2012

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tom 93

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nr 1

3

Isolation and computational characterization of glutathione peroxidase gene from an aquatic fern - Salvinia molesta

72%

Rahaman S., Singh P. K., Basu P., Gupta S., Basu M., Ganguli S.

International Letters of Natural Sciences

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2016

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tom 51

Pteridophytes and more specifically ferns represent a large but threatened group of plants which often serve as important environmental markers for pollution. Reports regarding stress responses in ferns are rare, apart from a few studies involving the ecological distribution and molecular marker studies. This work isolates a glutathione peroxidase enzyme from an aquatic fern widely distributed in fresh and polluted water bodies adjacent to sources of environmental polluted sources. Further computational analyses were performed to study the structure of the protein encoded by the open reading frame. Results indicate the presence of a large number of binding pockets which serve as important binding sites in the interactions with the cognate ligands.

4

Identifying overlapping phylogenetic and geographic roots of HIV - 1 evolution through computational analyses

58%

Singh P. K., Banik R., Chakraborty H. J., Das S. G., Ganguli S., Datta A.

International Letters of Natural Sciences

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2014

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tom 02

HIV-1 or Human Immuno Deficiency Virus-1 is the main causative agent of Acquired Immuno Deficiency Syndrome (AIDS). Human host infected with HIV - 1 extensively harbours many viral variants but very little is known about the difference in pattern[17] of evolution of phylogenetic lineages of HIV-1 non recombinant, normal inter subtype recombinant and main two specific recombinant forms of HIV-1 i.e., Circulating Recombinant Forms (CRFs) and Unique Recombinant Forms (URFs). This study is mainly concerned with study of the difference in evolutionary lineages of non-recombinant and recombinant sequences of HIV-1 genome sequences and identification of geographically rich areas which has reported high degree of HIV-1 occurrence and variety. Total 1550 HIV-1 genome sequences were obtained from HIV Los Alamos Database. The sequences were aligned using MAFFT (Multiple Alignment using Fast Fourier Transform) web server tool. Alignment was carried out using 10 different set of alignment parameter values. After alignment the aligned file was used for constructing N-J phylogenetic tree using Clustal X2 tool. Phylogenetic analysis was performed keeping in mind the category to which the sequence belongs. Upon analysis it was observed that the clade containing the probable ancestor belongs remained constant in all cases of different alignment values. Non recombinant isolates, inter subtype recombinants, CRFs, URFs all followed different patterns of evolution. Non recombinant sequences were found geographically specific and subtype specific to some extent whereas, normal recombinants were subtype specific and less geographically specific. CRFs showed variation among the pattern of their evolution. At some instances the sequences occurred as sister taxa of non-recombinant or normal inter subtype recombinant sequences, while at some instances as sister taxa of other CRFs where they were geographically specific. Three CRFs existed as completely diverged sequences. URFs were four in number; two of them were Indian isolates of while other two were Japanese isolates. URFs were found to be totally geographically specific. Geography wise high rate of variation was observed in India and Japan as these two countries had sequences belonging to all of the above categories. Cameroon and South Africa have very large number isolates and a considerable amount of genetic variation among isolates but they lack URFs.

5

Deterministic models and stochastic simulations in multiple reaction models in systems biology

58%

Laroch P., Puszynski K., Polanski A.

BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology

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2011

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tom 92

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nr 3

6

Identification of potential CD8+ epitopes in pp62 polyprotein of African swine fever virus using computational immunology

58%

Galicia M. L. C., Morales D. J. M., Pogado P. G. B., Quebrado A. L., Herrera-Ong L. R.

BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology

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2023

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tom 104

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nr 3

7

Computational analysis of Ancylostoma ceylanicum cysteine proteinase

58%

Baska P., Wisniewski M., Mieszczanek J., Wedrychowicz H.

Wiadomości Parazytologiczne

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2006

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tom 52

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nr 4

The potential tertiary structure of Ancylostoma ceylanicum cysteine proteinase was obtained by Automatic Program 3D-JIGSAW and used for finding homologues of known structure by VAST program. The results of computational analysis showed the presence of domains recognizing host immunoglobulins. Based on this analysis we suggest that this protein is involved in cleaving of host antibodies and therefore it may be promising vaccine candidate. In this paper we present the computational analysis of parasitic antigen which is very helpful in evaluation of the potential role of this protein.

Ograniczanie wyników

Computational evaluation of bioactive compounds in Curcuma zanthorrhiza targeting SIRT1 and NFκB

Computational analysis of alternative spliced genes on maize chromosome 1

Isolation and computational characterization of glutathione peroxidase gene from an aquatic fern - Salvinia molesta

Identifying overlapping phylogenetic and geographic roots of HIV - 1 evolution through computational analyses

Deterministic models and stochastic simulations in multiple reaction models in systems biology

Identification of potential CD8+ epitopes in pp62 polyprotein of African swine fever virus using computational immunology

Computational analysis of Ancylostoma ceylanicum cysteine proteinase