Projects
Determination of the genome sequence of the acetic acid bacterium Acetobacter pasteurianus 386B as starting point to unravel the functional role of acetic acid bacteria in the cocoa bean fermentation process Vrije Universiteit Brussel
Research equipment: Ion Personal Genome Machine TM (PGM TM) Sequencer en Ion Proton TM Sequencer Ghent University
The Ion Torrent TM semiconductor chip technology makes it possible to rapidly generate millions of sequences in a scalable fashion. Small chips can be used to resequence specific genes, while the bigger chips can be used to sequence a complete exome or genome. The Personal Genome Machine TM (PGM TM) Sequencer is used to run the smaller chips, while the Ion Proton TM Sequencer is used to run the bigger chips. The technology is disruptive ...
Regulatory annotation of plant genomes by means of functional chromatin signatures and comparative sequence analysis Ghent University
Transcriptional regulation is a dynamic process that plays an important role in establishing gene expression profiles during development or in response to (a)biotic stimuli. The aims of this project consisted of two parts: one is the study of how transcriptional regulation and gene expression is organized across the genome. The second consists of applying the obtained datasets to assign function to TFs and their target genes with previously ...
The role of genome integrated T-DNA sequences in the evolution/domestication of sweet potato (Ipomoea batatas) Ghent University
This project wants to analyze the presence, expression and role of T-DNA sequences in several sweet potato genotypes. Sequences analysis will be performed to study the inserted T-DNA sequences and the flanking plant DNA. The inheritance of the T-DNA alleles will be studied in the progeny of a cross.
Genomic diagnostics beyond the sequence KU Leuven
Cytogenetic diagnostic approaches provide information on the single-chromosome level but suffer from low resolution and throughput. In contrast, next generation sequencing (NGS) based diagnostics provides single base resolution and high throughput but suffer from short reads that prevent analysis of large genomic aberrations as well as being prone to PCR-amplification bias and erasure of epigenetic information. This proposal aims to bridge ...
Charting the genomic sequence of the 22q11 low copy repeats by cross-platform sequencing to unravel the causes of the phenotypic variability of the 22q11.2 deletion syndrome. KU Leuven
HiSeq 2500: high throughput next-generation sequencer for ultrafast and cheap decoding of whole exomes, genomes, transciptomes, epigenomes and viromes. Ghent University
Hercules 1 - De Baere
HiSeq 2500: high throughput next-generation sequencer for ultrafest and cheap decoding of
whole exomes, genomes, transcriptomes, epigenomes and viromes.
Herculesstichting
AUGE/13/23
Search schemes for sequence alignment to pan-genome graphs. Ghent University
Pan-genomics is a quickly evolving field driven by the rapidly increasing number of sequenced genomes of individuals. Because of the wide applicability of pan-genome data structures and functionality, we will develop scalable, graph-based pan-genome representations as well as algorithms that enable efficient search functionality. The main driving innovative factor for the search functionality is the detection of non-contiguous occurrences of ...