Loren Data's SAM Daily™

fbodaily.com
Home Today's SAM Search Archives Numbered Notes CBD Archives Subscribe
FBO DAILY ISSUE OF MAY 24, 2009 FBO #2736
SOLICITATION NOTICE

A -- Custom Genome Sequencing

Notice Date
5/22/2009
 
Notice Type
Combined Synopsis/Solicitation
 
NAICS
541711 — Research and Development in Biotechnology
 
Contracting Office
Department of Health and Human Services, National Institutes of Health, National Institute of Allergy & Infectious Diseases/AMOB, 10401 Fernwood Drive, Suite 2NE70, MSC 4811, Bethesda, Maryland, 20817
 
ZIP Code
20817
 
Solicitation Number
RML-RFQ-9018
 
Archive Date
6/19/2009
 
Point of Contact
Julienne Keiser, Phone: 406-363-9370, Lynda Kieres, Phone: 406-363-9210
 
E-Mail Address
jkeiser@niaid.nih.gov, lkieres@niaid.nih.gov
(jkeiser@niaid.nih.gov, lkieres@niaid.nih.gov)
 
Small Business Set-Aside
Total Small Business
 
Description
This notice is a combined synopsis/solicitation, Notice of Intent. The Government intends to negotiate on a sole source basis with Integrated Genomics for custom genome sequencing, in accordance with the format in Subpart 12.6, in conjunction with FAR 13.5, as applicable, and as supplemented with additional information included in this notice. This announcement constitutes the only solicitation; quotes are not being requested and a written solicitation will not be issued. Submit offers on NOI-RML-9018. The solicitation documents and incorporated provisions and clauses are those in effect through Federal Acquisition Circular 2005-32 dated 5/14/09. This acquisition will be processed under Simplified Acquisition Procedures (SAP) and is a Small Business Set-Aside. The North American Industry Classification System (NAICS) code for this procurement is 541711 and the small business size is 500. The National Institute of Allergy and Infectious Disease (NIAID), Rocky Mountain Laboratories (RML), Laboratory of Zoonotic Virology (LV), has been charged with performing basic research contributing to the development of diagnostic reagents, therapeutics and vaccines against human viral pathogens. The Transcriptome sequencing of a Hamster species, a model of viral infection in LV, will contribute towards these goals. SCHEDULE: The RML has a need to sequence using the GS FLX titanium series technology libraries from 6(six) different Syrian Hamster tissues to approximately 20X coverage with assembly or clustering performed and Blast searches and annotation of the assembled or clustered sequences. The goal of this effort will be to produce an expression assembly of the Hamster genome for future use in developing a custom array. The contractor shall provide to LV and the RTS services to sequence hamster RNA to ~20X using GS FLX titanium series technology chemistry, run an assembly annotate for the new assembly and upload the data into the RML ERGO server. This is a 1-2 month, one time work effort, where the final product will be an expression Hamster genome annotated and uploaded into RML ERGO. Step 1: High Throughput RNA sequencing shall be performed by pyrosequencing technology using a 454 GSFLx sequencing machine and GS FLX titanium series technology. The bead-based library construction and operation of the 454 technology shall be performed at the highest levels of quality possible. Quality sequence shall occur and be ensured and maintained throughout the work effort. The whole genome sequencing approach shall be assembled with the current, state-of-the-art algorithms. The goal of this project is to obtain near full length sequence for all transcripts expressed within the tissues. The RNA is isolated and provided to the contractor. Assembly can use the 454 Newbler Assembler that is compatible with the 454 GSFLx. Following the total, complete assembly of all data, the contractor shall use public and proprietary gene identification tools and technologies to identify expressed, open reading frames (ORFs) in the newly assembled sequence. Widely known and used Bioinformatics algorithms such as CRITICA and Glimmer and other well-known tools such as ProkPeg shall be used. Protein encoding regions and coding RNAs shall be identified. SCF-formatted trace data and the assembled contigs in FASTA format shall be available for download by FTP. The Trace data shall be readable by standard sequencing reading and editable software. Genomic data shall be uploaded into the RML ERGO server. Data shall be compatible with ERGO naming conventions and upload requirements. At no time shall the interface or upload of genomic data affect the service and support contract currently in place for the RML ERGO server. The contractor shall provide EMBL-formatted ASCII files containing all contig, protein sequence and annotation information by CD-ROM for data storage at RML. The highest level of quality and attention to detail shall be performed throughout all stages of the project for this hamster genome effort. The contractor shall keep all RML-derived data secure and shall not release or maintain any of the data beyond this contract effort. If Internet connectivity is needed in order to perform the work, or transfer deliverables, contractor computers will be secure and in compliance with RML IT security procedures and policies. FOB Point shall be Destination, Hamilton, MT. Delivery location is Rocky Mountain Laboratories, 903 S. 4th Street, Hamilton, MT. The following FAR provisions and clauses apply to this acquisition: (B)(1) By submission of an offer, the offeror acknowledges the requirement that a prospective awardee shall be registered in the CCR database prior to award, during performance, and through final payment of any contract, basic agreement, basic ordering agreement, or blanket purchasing agreement resulting from this solicitation; 52.212-1 Instructions to Offerors Commercial Items; FAR52.212-2 Evaluation Commercial Items; FAR 52.212-4 Contract Terms and Conditions Commercial Items; FAR 52-212.5 Contract Terms and Conditions Required to Implement Statutes or Executive Orders Commercial Items; FAR52.227-14 Rights In Data General; HHSAR 352.224.70 (b)(f) Confidentiality of Information Clause. By submission of an offer, the offeror acknowledges the requirement that a prospective awardee shall have posted their FAR 52.212-3 Offerors Representations and Certifications Commercial Items at website http://orca.bpn.gov. Award will be based on the capability of the item offered to meet the above stated salient characteristics, delivery, price, past performance, and the best value to the government. Offers may be mailed to Julienne Keiser at Rocky Mountain Laboratories, 903 S. 4th Street, Hamilton, Mt 59840, faxed to the POC indicated above (Fax - 406-363-9288), or e-mailed at (JKeiser@niaid.nih.gov). Offers must be submitted not later than 4:30 PM (MST) 6/4/09. Copies of the above-referenced clauses are available from http://www.arnet.gov/far/current/html/52_000_107.html or upon request, either by telephone or fax. All responsible sources may submit an offer that will be considered by this Agency.
 
Web Link
FBO.gov Permalink
(https://www.fbo.gov/spg/HHS/NIH/AMOB/RML-RFQ-9018/listing.html)
 
Place of Performance
Address: ROCKY MOUNTAIN LABS, 903 S. 4TH STREET, HAMILTON, Montana, 59840, United States
Zip Code: 59840
 
Record
SN01825909-W 20090524/090522234837-255f289a887afe22bdaac184b2a17b78 (fbodaily.com)
 
Source
FedBizOpps Link to This Notice
(may not be valid after Archive Date)

FSG Index  |  This Issue's Index  |  Today's FBO Daily Index Page |
ECGrid: EDI VAN Interconnect ECGridOS: EDI Web Services Interconnect API Government Data Publications CBDDisk Subscribers
 Privacy Policy  Jenny in Wanderland!  © 1994-2024, Loren Data Corp.