Bioinformatics

The research project deals with two different types of data for two separate analysis. The first analysis deals with normalised RNA-seq breast cancer data where machine learning techniques are used to classify and identify the biomarker of cancer. Second analysis deals with raw DNA methylated leukemia samples to determine the mutations.

102p runthenight04 02-02-2023 7 4   Download

Research indexing method based on R-tree method to increase the efficiency of XPath queries on XML data, through intermediate data converted into numerical coordinates of tags; use the method of converting XML structured text data into numeric data that can be represented on 2-dimensional space (can be extended to many dimensions).

26p capheviahe26 25-01-2021 19 4   Download

Antimicrobial resistance is an emerging challenge for health personnel and researchers. In such scenario, alternative strategies targeting novel ways to kill or inhibit growth of microbes are need of the hour. Antimicrobial peptide can be a promising candidate to deal with this crisis. Extracellular matrix protein vitronectin (Vn) is recently being established as a bactericidal agent against certain microbes. Caprine Vn has got few structural alterations as compare to human Vn.

7p nguaconbaynhay5 16-05-2020 16 2   Download

Perhaps the most widely used applications of bioinformatics are tools such as psi-blast for searching sequence databases. We describe a recently developed protein database search algorithm calledrankprop. rankprop relies upon a precomputed network of pairwise protein similarities. The algorithm performs a diffusion operation from a specified query protein across the protein similarity network.

10p fptmusic 12-04-2013 49 3   Download

Approximately 10% of amylolytic enzymes are able to bind and degrade raw starch. Usually a distinct domain, the starch-binding domain (SBD), is responsible for this property. These domains have been classified into families of carbohydrate-binding modules (CBM). At present, there are six SBD families: CBM20, CBM21, CBM25, CBM26, CBM34, and CBM41.

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To achieve a structural context for the analysis of G-protein coupled recep-tor (GPCR) oligomers, molecular modeling must be used to predict the corresponding interaction interfaces. The task is complicated by the paucity of detailed structural data at atomic resolution, and the large number of possible modes in which the bundles of seven transmembrane (TM) seg-ments of the interacting GPCR monomers can be packed together into dimers and⁄or higher-order oligomers.

13p fptmusic 11-04-2013 48 3   Download

The membrane associated proteins in eicosanoid and glutathione metabo-lism (MAPEG) superfamily includes structurally related membrane proteins with diverse functions of widespread origin. A total of 136 proteins belong-ing to the MAPEG superfamily were found in database and genome screenings. The members were found in prokaryotes and eukaryotes, but not in any archaeal organism.

16p awards 06-04-2013 33 3   Download

Addition of the second mannose is the only obvious step in glycosylphos-phatidylinositol (GPI) precursor assembly for which a responsible gene has not been discovered. A bioinformatics-based strategy identified the essential Saccharomyces cerevisiaeYbr004c protein as a candidate for the second GPIa-mannosyltransferase (GPI-MT-II). S. cerevisiae cells depleted of Ybr004cp have weakened cell walls and abnormal morphology, are unable to incorporate [ 3 H]inositol into proteins, and accumulate a GPI intermedi-ate having a single mannose that is likely modified with ethanolamine phosphate. ...

9p awards 05-04-2013 30 2   Download

Fifty-nine amino acid sequences belonging to family 57 (GH-57) of the glycoside hydrolases were collected using the CAZy server, Pfamdatabase andBLASTtools. Owing to the sequence heterogeneity of the GH-57 members, sequence alignments were performed using mainly manual methods. Likewise, five conserved regions were identified, which are postulated to be GH-57 consensus motifs.

10p dell39 03-04-2013 33 2   Download

A bioinformatic screening of the genome of the hyperthermophilic bacter-ium Thermotoga maritimafor ester-hydrolyzing enzymes revealed a protein with typical esterase motifs, though annotated as a hypothetical protein. To confirm its putative esterase function the gene (estD) was cloned, func-tionally expressed in Escherichia coliand purified to homogeneity.

11p galaxyss3 19-03-2013 30 3   Download

Death-associated protein kinase 1 (DAPK-1) is a multidomain protein kinase with diverse roles in autophagic, apoptotic and survival pathways. Bioinformatic screens were used to identify a small internal mRNA from the DAPK-1locus (named s-DAPK-1).

13p media19 06-03-2013 45 4   Download

Spo0B is an important component of the phosphorelay signal transduction pathway, the pathway involved in the initiation of sporulation inBacil-lus subtilis. Bioinformatic, phylogenetic and biochemical studies showed that Spo0B of Bacillus anthracishas evolved from citrate⁄malate kinases.

14p media19 05-03-2013 35 1   Download

In human monocyte-derived macrophages, the MCPIPgene (monocyte chemoattractant protein-induced protein) is strongly activated by inter-leukin-1b(IL-1b). Using bioinformatics, a PIN domain was identified, span-ning amino acids 130-280; such domains are known to possess structural features of RNases. Recently, RNase properties of MCPIP were confirmed on transcripts coding for interleukins IL-6 and IL-12p40.

14p vinaphone15 28-02-2013 46 3   Download

In an effort to shed more light on the early evolutionary history of the heavy-chain subunits of heteromeric amino acid transporters (hcHATs) rBAT and 4F2hc within the a-amylase family GH13, a bioinformatics study was undertaken.

14p vinaphone15 27-02-2013 29 2   Download

Activation of hepatic stellate cells (HSCs), which is regulated by multiple signal transduction pathways, is the key event in liver fibrosis. Moreover, members of these pathways are important targets for microRNAs (miR-NAs). To better understand the critical pathways of HSC activation, we performed comprehensive comparative bioinformatics analysis of micro-arrays of quiescent and activated HSCs.

14p vinaphone15 25-02-2013 40 3   Download

Giới thiệu Mô hình dữ liệu NCBI (tuần 1) Cơ sở dữ liệu trình tự GenBank (tuần 2) Cơ sở dữ liệu về cấu trúc (tuần 3) Cơ sở dữ liệu bản đồ genom (tuần 4) - Các cơ sở dữ liệu Cơ sở dữ liệu NCBI (National Center for Biotechnology Information) Cơ sở dữ liệu EMBL-EBI (European Molecular Biology Laboratory-European Bioinformatics Institute) Cơ sở dữ liệu CIB-DDBJ (Center for Information Biology-DNA Data Bank of Japan)

6p trautuongquan 25-02-2013 224 44   Download

Long terminal repeats (LTR) of endogenous retroviruses com-prise about 8% of human genome. Typical LTR contains a set of regulatory elements: promoters, enhancers, polyadenilation sites, which can take part in neighbouring genes expression regu-lation.

262p viettel02 22-02-2013 86 17   Download

The DNA of every cell in the body carries a pattern of chemical modifications due to the methylation of cytosine in the dinucleo-tide sequence 5¢CG. It is thought that these chemical marks help to define the pattern of gene expression that is appropriate for each cell type.

80p viettel02 22-02-2013 44 4   Download

The discovery that microRNAs (miRNAs) are synthesized as hairpin-con-taining precursors and share many features has stimulated the development of several computational approaches for identifying new miRNA genes in various animal species.

7p viettel02 22-02-2013 41 3   Download

G-quadruplex motifs constitute unusual DNA secondary structures formed by stacking of planar hydrogen-bonded G-tetrads. Recent genome-wide bioinformatics and experimental analyses have suggested the interesting possibility that G-quadruplex motifs could be cis-regulatory elements.

11p viettel02 19-02-2013 26 3   Download