Tag: Tiling-arrays

chipD 1.0 – Design Oligonucleotide Probes for high-density Tiling Arrays

chipD 1.0

:: DESCRIPTION

The chipD Server is a tool for designing ChIP-chip microarrays with full genome coverage or to design expression arrays.

::DEVELOPER

UW BACTER Institute 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 chipD

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W321-5. doi: 10.1093/nar/gkq517. Epub 2010 Jun 6.
chipD: a web tool to design oligonucleotide probes for high-density tiling arrays.
Dufour YS1, Wesenberg GE, Tritt AJ, Glasner JD, Perna NT, Mitchell JC, Donohue TJ.

HATSEQ / HAT – Hypergeometric Analysis of Tiling-arrays and SEQuence data

HATSEQ / HAT

:: DESCRIPTION

 HATSEQ / HAT increased specificity for analysis of tiling-array data in comparison with alternative methods, and that it accurately detected regions-of-interest in different applications of tiling-arrays.

::DEVELOPER

The Delft Bioinformatics Lab

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • Matlab

:: DOWNLOAD

 HATSEQ / HAT

:: MORE INFORMATION

Citation

Adv Appl Bioinform Chem. 2013 Oct 25;6:55-62. doi: 10.2147/AABC.S51271. eCollection 2013.
Hypergeometric analysis of tiling-array and sequence data: detection and interpretation of peaks.
Taskesen E1, Hoogeboezem R, Delwel R, Reinders MJ.

HAT: hypergeometric analysis of tiling-arrays with application to promoter-GeneChip data.
Taskesen E, Beekman R, de Ridder J, Wouters BJ, Peeters JK, Touw IP, Reinders MJ, Delwel R.
BMC Bioinformatics. 2010 May 21;11:275.