title: Colorado State University Mycobacterium Tuberculosis V2
status: Public on Oct 22 2007
contact.city: Baltimore
contact.first: Petros
contact.last: Karakousis
contact.email: petros@jhmi.edu
contact.state: MD
contact.address: 1550 Orleans St
contact.department: Medicine
contact.country: USA
contact.institute: Johns Hopkins University School of Medicine
contact.phone: 410-502-8233
organism: Mycobacterium tuberculosis H37Rv
description: The oligo set represents 4505 70mer probes representing 3926 Open Reading Frames (ORFs) from the mycobacterium tuberculosis H37Rv strain and also representing 3811 ORFs from the CDC-1551 strain.  3932 probes were obtained from the sanger institute (http://www.sanger.ac.uk) representing H37Rv while 573 probes are designed from ORFs from the Institute for Genomic Research (http://www.tigr.org).  H37Rv has 3926 ORFs represented while CDC1551 has 3811 ORFs represented. Each oligo is designed to be within 5oC of 79oC using Tm=81.5+16.6*log[Na+]+41*(#G+#C)/Length-500/length with [Na]=0.1M and length equaling the total bases.  Oligo's are then screened for hairpin and cross-reactivity.
manufacture_protocol: Oligonucleotide 70mers were generated from whole genome sequence within coding regions.  Features were designed to have similar hybridization temperatures.  Samples were spotted and pre-processed using standard procedures from the Brown lab at Stanford University School of Medicine