gene regulatory network identification
Combined analysis of gene regulatory network and SNV information enhances identification of potential gene markers in mouse knockout studies with small number of samples
... selected gene markers and false positives (fp) as incorrect selected gene ...carded gene markers and true negatives (tn) as correctly discarded non-gene ...a gene marker and ...
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Identification of potential biomarkers to differentially diagnose solid pseudopapillary tumors and pancreatic malignancies via a gene regulatory network
... Another path gene that could successfully differentiate SPN from PDAC was miR-204, which increased in SPN compared with PDAC (10.86-fold, P < 0.01) and non- neoplastic pancreatic tissues (5.65-fold, P < ...
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Original Article Identification of a novel miRNA-target gene regulatory network in osteosarcoma by integrating transcriptome analysis
... miRNA-target gene regulatory network underlying ...of gene expression data to identify 109 differently expressed miRNA target ...miRNA-target gene regulatory network was ...
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Phylogenomic Identification of Regulatory Sequences in Bacteria: an Analysis of Statistical Power and an Application to Borrelia burgdorferi Sensu Lato
... of gene regulatory elements in ...that regulatory elements may not be conserved in primary ...genome-wide regulatory network in ...
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Analysis of the PC algorithm as a tool for the inference of gene regulatory networks: evaluation of the performance, modification and application to selected case studies.
... characterized Gene Regulatory Network, called Local Gene Network (LGN) in the ...the identification of new genes that are related with the known genes of the ...expansion ...
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Identification of differentially expressed circRNAs and a novel hsa_circ_0000144 that promote tumor growth in gastric cancer
... Methods: Gene ontology (GO) enrichment and analyses of Kyoto Encyclopedia of Genes and Genomes (KEGG) path- ways, pathway network, and the ceRNA regulatory network of hsa_circ_0000144 ...
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Cis-regulatory analysis of the sea urchin delta gene : validating the architecture of the gene regulatory network model for micromere lineage specification
... the regulatory functions predicted by the GRN ...The identification of hesC confirms the use of a double negative gate for the translation of the spatial information in the egg into the institution of the ...
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Microarray Data Mining and Gene Regulatory Network Analysis
... on gene expression signatures in flounder livers was limited to specific ...this gene set ...the identification of classifier genes in both aquatic species like the zebrafish (Danio rerio) [152], the ...
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Gene regulatory network state estimation from arbitrary correlated measurements
... All tools for estimation, identification, and control of POBDS have been built based on the assumption that the measurement noise is uncorrelated over time. How- ever, this assumption may not hold in practice, due ...
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Characterization of the proneural gene regulatory network during mouse telencephalon development
... The identification of potential downstream effectors of Mash1 and Ngn2 allowed us to examine the occurrence of defined TFBSs in the conserved sequence surrounding those ...
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Towards gene network estimation with structure learning
... of gene expression data that were successfully used in cancer research and drug discovery ...of gene expression data has spurred research in gene clustering, gene classification, gene ...
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Dynamical Analysis of Regulatory Interactions in the Gap Gene System of Drosophila melanogaster
... The gene circuit modeling framework: The gene circuit step can be found at ...the gene circuit model are blastoderm nuclei de- nary nuclear masks were constructed by edge detection, and noted by the ...
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Gene Regulatory Network Inference Using Machine Learning Techniques
... steady-state gene expression data to learn the ordinary dif- ferential equation defining each gene’s transcription ...Bayesian network, ordinary differential based methods, Granger causality based methods, ...
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Single cell transcriptomics unveils gene regulatory network plasticity
... Single-cell sequencing is characterized by a series of technical limitations that generate artifacts, such as drop-out events, irregular sequencing depth, and low li- brary complexity. First, drop-out events represent ...
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483.full.pdf
... Fig. 2. Transcriptional regulation of the elt-2 gene. (A) The expression of transgenic reporters accurately reflects the in vivo expression of ELT-2. The top row shows the normal endogenous expression patterns of ...
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The distinct gene regulatory network of myoglobin in prostate and breast cancer
... Hormone-driven chromatin modifications at MB enhancer sites According to RNA-Seq data, treatment of LNCaP cells with androgens associated with a decrease of MB mRNA levels (Fig 2a). Thus, androgen treatment may impact on ...
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Wnt6 activates endoderm in the sea urchin gene regulatory network
... Ectopic vegetal cortex activates endomesoderm Horstadius (Horstadius, 1939) showed that micromeres inserted at the animal pole induce a second gut and ectopic skeleton, as repeated in Fig. 5A with the result shown in ...
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Mean field analysis of a spatial stochastic model of a gene regulatory network
... In this section, we apply data clustering methods to classify the time series data of the state of the free promoter generated by solving the mean field models presented in the previous sections for a range of parameter ...
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Identification of cis-regulatory mutations generating de novo edges in personalized cancer gene regulatory networks
... (head, Sabine Tejpar); and DU-145 from the laboratory of Lipid Metabolism and Cancer, KU Leuven (head, Johan Swinnen). The cell lines were grown to ~ 85% confluence per 15-cm dish. A total of 20 million cells per sample ...
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CRYPTIC OPERON FOR β-GLUCOSIDE METABOLISM IN ESCHERICHIA COLI K12: GENETIC EVIDENCE FOR A REGULATORY PROTEIN
... Identification of a new regulatory gene bglY: In order to test for the presence of mutations in the bglBSRC operon, P1 phage was grown on each of the 28 spon- taneous Bglf [r] ...
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