The Verstrepen Lab


	Tools and Data constructed by our lab: SERV - "Sequence-Based Estimation of Repeat Variability". A tool to find tandem repeats in DNA sequences and estimate the variability of each repeat found. The higher the VARscore, the higher the estimated variability. Sequences with VARscores above 1 are usually polymorphic between species/strains. For more information, see: Legendre, M., Pochet, N., Pak, T. and Verstrepen, K.J. (2007). Sequence-based estimation of minisatellite and microsatellite repeat variability. Genome Research. PDF file. Searchable Databases containing all tandem repeats located within genes and/or promoters of the following organisms: S. cerevisiae, A. thaliana, O. sativa, A. fumigatus. Excel file containing the top 100 most variable repeats (predicted using SERV) located within human coding sequences (exons). PDF file of relevant paper on the SERV algorithm. PDF File containing all S. cerevisiae Open Reading Frames (ORFs) containing "non-fuzzy" internal tandem repeats. Reference: Verstrepen et al., Nature Genetics 37: 986-990 (2005). PDF file of this paper. Excel files with raw data and enrichment analysis of genome-wide expression data of FLO1-expressing versus flo1 cells. Protocols: High-yield total RNA isolation from S. cerevisiae. (download PDF) A simple yet efficient protocol for yeast transformation. Works fine with industrial strains as well. (download PDF) Quick genomic prep from yeast. This prep yields semi-pure gDNA, perfect for diagnostic PCR. (download PDF) RNA prep from yeast cells using the ABI6100 Nucleoprep machine. (download PDF)

Yeast DNA

Resources Title

Tools and Data constructed by our lab:

SERV - "Sequence-Based Estimation of Repeat Variability". A tool to find tandem repeats in DNA sequences and estimate the variability of each repeat found. The higher the VARscore, the higher the estimated variability. Sequences with VARscores above 1 are usually polymorphic between species/strains.

For more information, see: Legendre, M., Pochet, N., Pak, T. and Verstrepen, K.J. (2007). Sequence-based estimation of minisatellite and microsatellite repeat variability. Genome Research. PDF file.

Searchable Databases containing all tandem repeats located within genes and/or promoters of the following organisms: S. cerevisiae, A. thaliana, O. sativa, A. fumigatus.

Excel file containing the top 100 most variable repeats (predicted using SERV) located within human coding sequences (exons). PDF file of relevant paper on the SERV algorithm.

PDF File containing all S. cerevisiae Open Reading Frames (ORFs) containing "non-fuzzy" internal tandem repeats. Reference: Verstrepen et al., Nature Genetics 37: 986-990 (2005). PDF file of this paper.

Excel files with raw data and enrichment analysis of genome-wide expression data of FLO1-expressing versus flo1 cells.

Protocols:

High-yield total RNA isolation from S. cerevisiae. (download PDF)

A simple yet efficient protocol for yeast transformation. Works fine with industrial strains as well. (download PDF)

Quick genomic prep from yeast. This prep yields semi-pure gDNA, perfect for diagnostic PCR. (download PDF)

RNA prep from yeast cells using the ABI6100 Nucleoprep machine. (download PDF)