This Government Contract opportunity from Department Of Veterans Affairs was posted on October 18, 2016. The submission period has ended. Browse the details below for market research, or find similar active opportunities.

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66--640-16-3-386-0134 AAA Whole Genome Sequencing

Awarded

VA24016Q0045Federal

Submission Closed09/21/2016, 12:00:00 AM UTC

Contract Overview

Solicitation details, issuing organization, response deadlines, documents, and interested companies for this government contract opportunity.

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NAICS: 541711

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FA8652 Afrl Hq Afrl/pk

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AI Contract Overview

The contract, starting in September 2016 for a one-year base period, involves whole genome sequencing of Abdominal Aortic Aneurysm (AAA) samples to support the VA Palo Alto Health Care System's Research Department. The scope includes the processing of genomic DNA extracted from 100 study participants from a family with a high prevalence of AAA. The vendor is required to genotype all samples for polymorphic SNPs to confirm identity before sequencing, fragment the DNA to a specific size range, perform multiple quality control steps during library preparation, and quantify the final sequencing libraries. Sequencing data must be generated using HiSeq technology to meet target coverage, and sample identities must be validated against stored genotype information. The final deliverables include aggregated sequencing data provided in BAM format along with base calls, quality scores, alignment data, and variant call format (VCF) files detailing SNPs and indels relevant to the project. Quality metrics are also to be provided to assess completion and data integrity. Data will be delivered to the principal investigator in demultiplexed and aligned formats. Although this notice is not a request for competitive proposals, interested and capable vendors were invited to submit capability statements by August 8, 2016, to the contracting office for consideration. The procurement is managed by the Department of Veterans Affairs, categorized under NAICS code 334516, with no specified set-aside, and is related to genomic sequencing services.

General Info

One-year contract for whole genome sequencing of 100 AAA samples using HiSeq technology.

Agency

Department Of Veterans Affairs → Rpo East (36C24E)

Contract Value

$198,000

NAICS

541711 - Research and Development in Biotechnology

Place of Performance

PA, USA

Set-Aside

NONE

Awardee

ILLUMINA, INC.

Award Issued Date

09/21/2016, 12:00:00 AM UTC

Documents

No documents available

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Timeline

PhaseAwarded

PostedAug 3

Sources Sought

AwardedSep 21

Contract was awarded

Submission Closed

09/21/2016, 12:00:00 AM UTC

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Organization & Contact Information

AgencyDepartment Of Veterans Affairs → Rpo East (36C24E)

ContactsNo contacts available

OfficePITTSBURGH, PA, 15212, USA

Organization / AgencyDepartment Of Veterans Affairs → Rpo East (36C24E)

Office AddressPITTSBURGH, PA, 15212, USA

ContactsNo contact information available

Full Description

General Scope The contract will begin September 2016 for one (1) twelve (12) month base period. Whole genome sequencing of Abdominal Aortic aneurysm (AAA) samples will be performed in support of the VA Palo Alto Health Care System (VAPAHCS), Research Department. We will isolate and quantitate genomic DNA isolated from AAA specimens. These DNA samples will be diluted at or above a given concentrations. DNA submitted is 250 nanogram total per sample. SPECIFIC TASKS/REQUIREMENTS DNA samples extracted from 100 study participants, who are members of a family with high prevalence of AAA, are sent to Vendor for the following tasks . a. All samples are first to be genotyped with highly polymorphic SNPs, providing a genetic fingerprint to confirm sample identity of subsequent sequence data. b. Samples are then sheared and optimized to a ~350-500bp size distribution. c. Samples are quality controlled throughout the process through a number of assays including 1) DNA quantitation after adapter ligation, 2) qPCR after library construction to assess the number of properly adapted fragments. d. Final libraries are quantitated by qPCR and loaded across the appropriate number of Vendor HiSeq flow cell lanes to achieve the target coverage e. Sample identity is verified using previously stored genotypes. f. Data is aggregated per sample and delivered in BAM format including base calls, quality scores, and alignment data. g. Metrics are generated to inform completion and quality of sequencing data. h. VCF file will contain SNPs and indels of interest to genotype all the samples in a project or set of projects. i. Data transported to PI via a de-multiplexed aggregated and aligned BAM files and VCF files. This notice of intent is not a request for competitive proposals; however, any responsible source who believes they are capable of meeting the requirement may submit a capability statement to the contracting office no later than Monday, August 8, 2016 at 1:00 PM EST. Interest/capability statements may be sent to Linda Buccigrossi at contact@example.gov. No telephone responses will be accepted. A determination not to compete the proposed requirement based upon the responses to this notice is solely within the discretion of the Government. When submitting capability statement please identify in the email subject line the following: Genome Sequencing - Palo Alto Response to Sources Sought