SOLICITATION NOTICE
B -- Genomic scaffolding for two perennial grass genomes
- Notice Date
- 3/9/2021 7:30:26 AM
- Notice Type
- Combined Synopsis/Solicitation
- NAICS
- 541715
— Research and Development in the Physical, Engineering, and Life Sciences (except Nanotechnology and Biotechnology)
- Contracting Office
- USDA ARS PWA AAO ACQ/PER PROP ALBANY CA 94710 USA
- ZIP Code
- 94710
- Solicitation Number
- 1026976
- Response Due
- 3/12/2021 2:00:00 PM
- Archive Date
- 03/27/2021
- Point of Contact
- Shelley Steen, Phone: 208-423-6568
- E-Mail Address
-
shelley.steen@usda.gov
(shelley.steen@usda.gov)
- Description
- The United States Department of Agriculture (USDA), ARS, Forage and Range Research Utah in Logan, UT has a requirement for genome sequencing and TAD analysis, including DeNovo Assembly QC, a Proximity Ligation Library Prep and sequencing for 133Gb, and an assembly Informatics package.� The samples to be analyzed are bluebunch wheatgrass.� Delivery is required within 16 weeks from award. The NAICS Code is 541715 .� � � � � The PSC will be B529. This is a combined solicitation and synopsis for the U. S. Department of Agriculture (USDA), Agricultural Research Service (ARS), Forage and Range Research Utah in Logan, Utah.� This is a request for quotations for the genomic scaffolding for two perennial grass genomes. This announcement is open all interested and capable offerors. The USDA is seeking a Firm Fixed Price proposal from a qualified Contractor for the genome sequencing and TAD analysis, including DeNovo Assembly QC, a Proximity Ligation Library Prep and sequencing for 133Gb, and an assembly Informatics package.� The samples to be analyzed are bluebunch wheatgrass.� The following are the input constraints for TAD analysis: 40%�of read pairs should map at a distance > 1Kbp Genome size 40% of genome uniquly mappable Coverage: 100 M read pairs per 1Gb Deliverables shall include: ��� �HiRise Assembly deliverables include: ��� �The HiRise assembly in FASTA format ��� �A report summarizing key assembly statistics, features of the proximity ligation library, and a linkage density plot of the proximity ligation library data ��� �A table detailing the breaks made to the input scaffolds ��� �A table describing the position of the input assembly scaffolds within the final HiRise scaffolds ��� �BAM file(s) containing alignments of the proximity ligation library read pairs mapped to the draft assembly ��� �TAD Analysis deliverables, if applicable, include: ��� �TAD calls at 10kbp, 25kbp, and 50kbp ��� �CTCF binding sites ��� �A/B compartmental organization ��� �Isochore locations ��� �Guide to loading and viewing data in HiGlass ��� �Summary report � As authorized by FAR 5.102, solicitation dissemination is limited to electronic medium, and the USDA will provide no hard copies. �The solicitation will only be available for download at no charge at the Contract Opportunities website (https://beta.sam.gov/). Offeror's are advised that they are responsible for obtaining�ALL�solicitation documents and acknowledging any amendments and should re-visit the Contract Opportunities (https://beta.sam.gov/) website periodically to check for any modifications to this notice, updates, or amendments without further notice from the USDA. Prospective offerors shall complete electronic annual representations and certifications at http://www.sam.gov/ (SAM),�shall be registered�in the�System for Award Management �(SAM)�database at http://www.sam.gov prior to submitting an offer. Address all�questions in�writing�to the issuing office via email to: shelley.steen@usda.gov no later than March 11, 2021 at 3pm PST.� � No telephone inquiries will be accepted.
- Web Link
-
SAM.gov Permalink
(https://beta.sam.gov/opp/a00e8d3112434e2f8e3cb9df6555ec99/view)
- Place of Performance
- Address: UT 84322, USA
- Zip Code: 84322
- Country: USA
- Zip Code: 84322
- Record
- SN05936927-F 20210311/210309230105 (samdaily.us)
- Source
-
SAM.gov Link to This Notice
(may not be valid after Archive Date)
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