Analysis and Annotation of Cyclospora Cayetanensis Genome with Identification of Genotyping Markers

Analysis and Annotation of Cyclospora Cayetanensis Genome with Identification of Genotyping Markers 2015-84771 The Centers for Disease Control and Prevention (CDC) Procurement and Grants Office (PGO) intends to award a sole source purchase order to Georgia Tech Research Corporation, 505 10th Street, Atlanta, GA 30332-0420 for the development and application of bioinformatics algorithms (instructions) and bioinformatic diagnostic applications of genomic testing, or pipelines, which includes custom scripts and algorithms, reference sequences, and databases. The work results whole genome annotation and single nucleotide polymorphism (SNP) genotyping of C. cayetanensis. The bioinformatics algorithms obtained from the vendor will integrate the whole genome sequencing and gene expression (RNA-Seq) information. The scope of work includes develop a bioinformatics pipeline for genome annotation and analysis that can be used at CDC, Calibrate the bioinformatics pipeline for C. cayetanensis genomes, and produce genome annotation. Georgia Tech Research Corporation has unique expertise in genome analysis and genome annotation. It has also developed the proprietary software tools used in pioneering genome projects. Georgia Tech Center for Bioinformatics & Computational Genomics has been able to solve a number of long standing programs, particularly the one of automatic gene prediction in eukaryotic genomes by come-up with "unique in the filed" automatic software tools. It also has unique "know-how" or expertise in developing custom built pipelines for genome annotation where their original algorithms play a central role. The bioinformatics component of the Cyclospora project includes a number of bioinformatics tasks that have to be solved in serial order, the analysis has to be elevated to a higher complexity level in order to synchronize new and old data and to define high resolution genotypic features of Cyclospora isolates. The Georgia Tech Center for Bioinformatics & Computational Genomics has the capacity to apply it proprietary GeneMark software to new genome data sets and to customize the software as the additional data (both genome sequences and RNA-Seq data) is produced. Georgia Tach Research Corporation has the required experience expertise in genome analysis and genome annotation in a portable format and access to the proprietary GeneMark software for its application to eukaryotic genome sequence data. The delivery time is a 12-month base period from the award date. The anticipated award date is 15 September 2015. The estimated amount for the purchase order is estimated at $57,000.00. This is not a small business set-aside acquisition. The North American Industry Classification Code is 541330. This advertisement ends in 10 days in accordance with FAR 5.203(A)(1). Any interested parties are welcome to submit their qualification and ability to provide the specified services via e-mail, CTTucker@cdc.gov and Klemaster@cdc.gov. Please include reference number 2015-84771. Please respond by 24 August 2015. This is not a Request for Quote (RFQ). A determination not to compete based on responses received, and to proceed with a noncompetitive award is solely at the discretion of the Government. Information received will be considered solely for the purpose of determining whether or not to conduct a competitive procurement.