Gene network

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 6 3   Download

We develop a method called open chromatin enrichment and network Hi-C (OCEAN-C) for antibody-independent mapping of global open chromatin interactions. By integrating FAIRE-seq and Hi-C, OCEAN-C detects open chromatin interactions enriched by active cis-regulatory elements.

14p vimichaelfaraday 25-03-2022 12 3   Download

Genetic screens have been the lifeblood of forward genetics. They have enabled widespread discoveries of gene function, leading to meaningful advances in medicine, biotechnology, and agriculture. Nevertheless, technologies for performing these screens have been limited by scale, specificity, and targeting range of tools for investigating and perturbing the genome.

4p vimichaelfaraday 25-03-2022 14 1   Download

Hepatocellular carcinoma (HCC) is one of the deadliest cancers. Research on HCC so far primarily focused on genes and provided limited information on genomic repeats, which constitute more than half of the human genome and contribute to genomic stability. In line with this, repeat dysregulation was significantly shown to be pathological in various cancers and other diseases. In this study, we aimed to determine the full repeat expression profile of HCC for the first time.

14p thiencuuchu 27-11-2021 21 3   Download

Polyhydroxyalkanoate (PHA) is stored as an important carbon and energy source in bacterial cells. For biomedical applications, gram-positive bacteria can be better sources of PHAs, since they lack outer membrane lipopolysaccharide. Although gram-positive Streptomyces coelicolor A3(2) has been indicated as a high potential PHA producer, phaC gene that encodes the key enzyme PHA synthase in the metabolic pathway is not determined in its genome.

12p thiencuuchu 27-11-2021 18 2   Download

The glycogen synthase kinase 3/shaggy kinase (GSK3) is a serine/threonine kinase with important roles in animals. Although GSK3 genes have been studied for more than 30 years, plant GSK genes have been studied only since the last decade.

21p vishikamaru2711 29-04-2020 18 0   Download

Rapeseed (Brassica napus L.) and soybean (Glycine max L.) seeds are rich in both protein and oil, which are major sources of biofuels and nutrition. Although the difference in seed oil content between soybean (~ 20%) and rapeseed (~ 40%) exists, little is known about its underlying molecular mechanism.

15p vishikamaru2711 29-04-2020 11 0   Download

The topology of central carbon metabolism ofAspergillus nigerwas identified and the metabolic network reconstruc-ted, by integrating genomic, biochemical and physiological information available for this microorganism and other related fungi. The reconstructed network may serve as a valuabledatabase for annotationof genes identified in future genome sequencing projects on aspergilli. Based on the metabolic reconstruction, a stoichiometric model was set up that includes 284metabolites and335reactions,...

11p tumor12 20-04-2013 26 3   Download

All higher organisms divide major biochemical steps into different cellular compartments and often use tissue-specific division of metabolism for the same purpose.Such spatial resolution is accompanied with temporal changes of meta-bolite synthesis in response to environmental stimuli or developmental needs.Although analyses of primary and secondary gene products, i.e. transcripts, proteins, and metabolites, regularly do not cope with this spatial and temporal resolution, these gene products are often observed to be highly coregulated forming complex networks....

10p tumor12 20-04-2013 34 2   Download

Due to the unavoidable nonbiological variations accompanying many experiments, it is imperative to consider a way of unravelling the functional interaction structure of a cellular network (e.g. signalling cascades or gene networks) by using the qualitative information of time-series experimental data instead of computation through the measured absolute values.

10p fptmusic 11-04-2013 49 3   Download

New technologies enable acquisition of large data-sets containing genomic, proteomic and metabolic information that describe the state of a cell. These data-sets call for systematic methods enabling relevant information about the inner workings of the cell to be extracted. One important issue at hand is the understanding of the functional interactions between genes, proteins and metabolites.

11p awards 06-04-2013 26 2   Download

Patterns of protein interactions are organized around complex heterogene-ous networks. Their architecture has been suggested to be of relevance in understanding the interactome and its functional organization, which per-vades cellular robustness. Transcription factors are particularly relevant in this context, given their central role in gene regulation.

12p dell39 27-03-2013 37 3   Download

The inner face of the nuclear envelope of metazoan cells is covered by a thin lamina consisting of a one-layered network of intermediate filaments inter-connecting with a complex set of transmembrane proteins and chromatin associating factors. The constituent proteins, the lamins, have recently gained tremendous recognition, because mutations in the lamin A gene,

8p galaxyss3 21-03-2013 32 3   Download

The metabolic network is an important biological network which consists of enzymes and chemical compounds. However, a large number of meta-bolic pathways remains unknown, and most organism-specific metabolic pathways contain many missing enzymes. We present a novel method to identify the genes coding for missing enzymes using available genomic and chemical information from bacterial genomes.

12p galaxyss3 19-03-2013 44 3   Download

The innate immune system has provided an excellent model for study-ing complex regulatory networks at the levels of signal transduction and transcription. Virus infection of mammalian cells triggers the coor-dinate activation of multiple signaling pathways leading to the activa-tion of specific sets of transcription factors that assemble on the interferon-b (IFN-b) gene enhancer to form an enhanceosome.

61p galaxyss3 07-03-2013 42 5   Download

In recent years, our understanding of how gene regulatory networks con-trol cell physiology has improved dramatically. Studies have demonstrated that transcription is regulated not only by protein factors, but also by small RNA molecules, microRNAs (miRNAs). The first miRNA was discovered in 1993 as a result of a genetic screen for mutations in Caenorhabditis elegans.

13p viettel02 20-02-2013 36 2   Download

A survey of the expression of the transthyretin and thyroxine-binding glob-ulin genes in various species during development provides clues as to how the present thyroid hormone distribution network in extracellular compart-ments developed during vertebrate evolution. Albumin may be the ‘oldest’ component of the thyroid hormone distribution network as it is found in the plasma of all vertebrates investigated.

10p viettel02 20-02-2013 34 3   Download

Tuyển tập báo cáo các nghiên cứu khoa học quốc tế ngành hóa học dành cho các bạn yêu hóa học tham khảo đề tài: Research Article Comparison of Gene Regulatory Networks via Steady-State Trajectories

11p dauphong19 07-03-2012 32 2   Download

Tuyển tập báo cáo các nghiên cứu khoa học quốc tế ngành hóa học dành cho các bạn yêu hóa học tham khảo đề tài: Research Article Uncovering Gene Regulatory Networks from Time-Series Microarray Data with Variational Bayesian Structural Expectation Maximization

14p dauphong19 07-03-2012 42 4   Download

Tuyển tập báo cáo các nghiên cứu khoa học quốc tế ngành hóa học dành cho các bạn yêu hóa học tham khảo đề tài: Research Article Inferring Time-Varying Network Topologies from Gene Expression Data

12p dauphong19 07-03-2012 44 2   Download