Dissecting gene regulatory networks in vertebrate development using genomic and proteomic approaches

... also involves studying gene interactions at the transcriptional regulatory level and at protein interaction level GRNs for certain lineage specification have been mapped in detail in invertebrate ... urchin and in certain in vitro model systems for vertebrates Studying GRNs in vertebrate development poses various challenges, arising from the complexity of the genome and...

Ngày tải lên: 04/10/2015, 16:03

... promoter data for (Chapter 7) a) detection of new co-regulated genes, and b) deciphering parts of gene networks of which AMP genes are members 1.4 Contribution of this thesis AMP -coding genes and ... region analysis to find new AMP genes and co-regulated genes is a first of its kind approach in the field of antimicrobial peptides The results of this analysis can guide t...

Ngày tải lên: 14/09/2015, 09:05

... Construction of Gene Regulatory Networks using biclustering and Bayesian networks Fadhl M Alakwaa1*§, Nahed H Solouma and Yasser M Kadah3* University of Science and Technology, Sana'a, Yemen Department of ... supported by a grant from the University of Science & Technology, Yemen The authors would like to thank Prof Dana Pe'er, Columbia University; Dr Kevien Yip, Y...

Ngày tải lên: 13/08/2014, 16:20

... introduce a stochastic generalization of polynomial dynamical systems, namely, probabilistic polynomial dynamical systems, which is also a generalization of the above-mentioned probabilistic Boolean ... models In the next section, we present our method for the reverse engineering of gene regulatory networks as probabilistic polynomial dynamical systems Th...

Ngày tải lên: 21/06/2014, 03:20

... Inference, Morgan Kaufmann, San Francisco, Calif, USA, 1988 [2] N Friedman, M Linial, I Nachman, and D Pe’er, “Using Bayesian networks to analyze expression data,” Journal of Computational Biology, ... O Yli-Harja, and J Astola, Inference of genetic regulatory networks via best-fit extensions,” in Computational and Statistical Approaches to Genomics, pp 197–210, chapter 11, Kluwer...

Ngày tải lên: 21/06/2014, 22:20

... Island of Hawaii, Hawaii, USA, January 1999 [6] K Basso, A A Margolin, G Stolovitzky, U Klein, R DallaFavera, and A Califano, Reverse engineering of regulatory networks in human B cells,” Nature ... Unfortunately, there are not enough gold standard networks and appropriate experimental data available for a large comparative study For such a study one needs a sufficiently la...

Ngày tải lên: 22/06/2014, 00:20

... dynamic Bayesian networks formulation, our work has two objectives First, given a set of time-series data from a single experiment, we aim at uncovering the underlying gene regulatory networks ... inferring genetic regulatory interactions from microarray experiments with dynamic Bayesian networks, ” Bioinformatics, vol 19, no 17, pp 2271–2282, 2003 [23] K P Murphy...

Ngày tải lên: 22/06/2014, 19:20

... concentrations of mRNA and proteins induced by gene i, respectively, ci (t) is the fraction of DNA fragments committed to transcription of gene i, κi is the transcription rate of gene i, and τ ... transcriptional regulatory system (tRS) We generate networks using this model and a fixed set θ of parameters We call these networks reference networks A reference network is...

Ngày tải lên: 22/06/2014, 19:20

... is defined physically by the extent of long-range regulatory elements around its target gene Therefore, the combined synteny of HCNEs and the intertwined genes defines a minimal span of the GRB ... by a synteny- maintaining array of HCNEs [25], many of which were shown to act as the gene's regulatory inputs [6,26], often intertwined with other, unrelated (bystan...

Ngày tải lên: 09/08/2014, 20:20

... Prediction of mammalian microRNA targets Cell 2003, 115:787-798 doi:10.1186/gm144 Cite this article as: Sarachana T, et al.: Investigation of post-transcriptional gene regulatory networks associated with ... post-transcriptional gene regulatory networks associated with autism spectrum disorders by microRNA expression profiling of lymphoblasto...

Ngày tải lên: 11/08/2014, 12:20

... AtWRKY33 AtWRKY18 AtWRKY40 AtWRKY22 AtWRKY46 or AtWRKY53 AtWRKY75 AtWRKY46 or AtWRKY53 AtWRKY69 AtWRKY6 or AtWRKY31 AtWRKY46 AtWRKY54 or AtWRKY70 AtWRKY54 or AtWRKY70 AtWRKY26 or AtWRKY2 AtWRKY34 ... OsWRKY4 OsWRKY18 OsWRKY43 OsWRKY61 OsWRKY71 OsWRKY87 OsWRKY100 OsWRKY112 M oryzae BR32 OsWRKY4 OsWRKY18 OsWRKY40 OsWRKY43 OsWRKY61 OsWRKY64 OsWRKY87 OsWRKY100 OsWRKY112 M oryzae FR13 OsWRKY4 OsWR...

Ngày tải lên: 12/08/2014, 03:21

... mammals and yeast, is not straightforward in plants Similarly, studying cooperative TFBSs within regulatory modules also suffers from the inclusion of potentially false-positives when selecting genes ... identified using twoway clustering Additional data file is a table giving an overview of the 139 cis -regulatory modules Additional data file is a table showing the mot...

Ngày tải lên: 14/08/2014, 17:22

... Biogenesis of microRNAs 1. 1.3 Targets of microRNAs 1. 2 The role of microRNAs in development 1. 2 .1 microRNA functions in embryogenesis 1. 2.2 microRNA functions in stem cell development 1. 2.3 microRNA ... functions in neurogenesis 1. 3 microRNAs in diseases 11 1. 4 The expression and known functions of miR -12 5b 14 1. 5 Motivation of the thesis...

Ngày tải lên: 14/09/2015, 08:42

... 95%, n = 85 m 125 bMO + p53MO m 125 bMO * * 98%, n = 1 12 100%, n = 114 * lp 125 bMO1 /2/ 3 in p53M214K mutant 100%, n = 113 * lp 125 bMO1 /2/ 3 + p53MO lp 125 bMO1 /2/ 3 Figure 20 - Rescue of miR - 125 b morphants ... Log2 fold change in miR - 125 b level 8 ** -2 -4 ** 125 b- AS NC-AS1 125 b- DP NC-DP2 -6 Mock b Log2 fold change in miR - 125 b level a Figure 14 - Validation...

Ngày tải lên: 14/09/2015, 08:42

... ii Rubber in Laos Detection of actual and assessment of potential plantations in Lao PDR using GIS and remote sensing technologies Diplomarbeit der Philosophisch-naturwissenschaftlichen ... regarding decision-making and elaboration of development strategies Using my GIS and Remote Sensing competence and my fascination for the possibilities o...

Ngày tải lên: 17/03/2014, 11:20