Attachment 1 Seq_Service_Performance Work Statement.doc
DOC document 83 KB Posted
- Attached to
- High-Throughput Sequencing Service Federal contract opportunity
- Solicitation number
- 1232SA25Q0931
About this file
This Performance Work Statement (PWS) details high-throughput sequencing services for the Fargo Cereal Crops Improvement Research Unit at the USDA Agricultural Research Service. The project requires sequencing and analysis of biological samples, specifically 600 RNA extract/mRNA-Seq samples, 40 DNA extract/EnzMethyl-Seq samples, and 200 metabolite extract/LC-MS analysis samples. Key technical requirements include library preparation for messenger RNA sequencing, whole genome sequencing, and metabolomics profiling, with strict quality control and reporting requirements.
The solicitation is a small business set-aside with a total small business size standard of 1,000 employees, targeting a firm fixed-price purchase order. Contractors must provide quality reports within specific timelines: QC reports within 3 business days of sample receipt, library preparation initiated within 5 business days, sequencer run statistics within 7 business days, and sequencing data delivered within 10 business days. Performance incentives include price reductions for failing to meet sequencing quantity and quality standards. The data will be solely owned by the government, and all deliverables will be submitted via email and download links.
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Other files for this federal contract opportunity
| File | Type | Posted |
|---|---|---|
| Solicitation_1232SA25Q0931-0002.pdf | ||
| Sol_1232SA25Q0931_Amd_0002.pdf | ||
| Sol_1232SA25Q0931_Amd_0001.pdf | ||
| Attachment 1 Rev 1 Seq_Service_Performance Work Statement.doc | DOC document | |
| Solicitation_1232SA25Q0931.pdf | ||
| Attachment 2 - Wage Determination 2015-4969 Rev 29.pdf |
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Text version
Performance Work Statement (PWS)
Project: Sequencing Service
GENERAL INFORMATION
1.0 Background and Purpose: The Fargo Cereal Crops Improvement Research Unit investigates the genomics of small grains in the US. Our focus is to assist the community by providing genotyping service and performing primary research on the identification of gene regions that influence traits. Once found, this knowledge is used to accelerate breeding of better cultivars with high yield, excellent quality, and innate disease resistance. To do this high-throughput sequencing, along with interrogation of the gene expression capacity is necessary to evaluate the genomes of populations to find these regions.
2.0 Definitions: QC – Quality Control; Gb – Gigabase; POC – Point of Contact; PE – Paired End; DNA - Deoxyribonucleic acid; RNA - Ribonucleic acid
CONTRACTOR REQUIREMENTS
3.0 Technical Requirements/Tasks:
LC-MS: Metabolomics profiling – Preparation of metabolite library from submitted tissue samples. Quality report submitted via email mRNA-seq: Messenger RNA sequencing library generation – Preparation of sequencing library from submitted total RNA. Quality report submitted via email WGS: Whole Genome Sequencing- Illumina library generation – Preparation of sequencing library from submitted DNA. Quality report submitted via email bWGS: Bisulfite Whole Genome Sequencing -Illumina sequencing library generation – Preparation of sequencing library from submitted DNA. Quality report submitted via email
| Quantity |
| Unit of Issue |
| Part Name or Number |
| 600 |
| Sample |
| RNA extract + mRNA-Seq + 6 G data |
| 40 |
| Sample |
| DNA extract + EnzMethyl-Seq + 250 G data |
| 200 |
| Sample |
| Metabolite extract + LC-MS + analysis |
4.0 Deliverable / Schedule:
· Sample tissue will be submitted to the contractors on an as-needed basis via delivery service throughout the performance period for a total of samples as determined in the table below.
| Quantity |
| Unit of Issue |
| Part Name or Number |
| 600 |
| Sample |
| RNA extract + mRNA-Seq + 6 G data |
| 40 |
| Sample |
| DNA extract + EnzMethyl-Seq + 250 G data |
| 200 |
| Sample |
| Metabolite extract + LC-MS + analysis |
· Every sample will be processed to extract either RNA, DNA or metabolites and converted into libraries and sequenced or analyzed to the customers specifications as described in the contractor’s submission documentation.
· Every submitted library will be QC analyzed and pooled for sequencing to the customers specifications as described in the contractor’s submission documentation.
· All reports will be delivered via email to the government POC.
· All final data (raw and assembled) will be provided via a download link.
· Timely submission of deliverables is essential to successful completing this requirement. Schedules for deliverables are specified in below.
Key Deliverables
| Item No. |
| Deliverable |
| Objective |
| Due |
| 1 |
| QC report of submitted sample |
| To identify if sample should be re-submitted |
| No later than three (6) business days after submitted sample is received |
| 2 |
| Library Prep & Sequencing |
| To perform the task |
| Initiated no later than five (5) business days after confirmation of sample QC |
| 3 |
| Sequencer Run Statistic Report |
| To identify if the sequencing run was successful |
| No later than seven (7) business days after confirmation of sample QC |
| 4 |
| Sequencing Data |
| To receive data for analysis |
| No later than ten (10) business days after confirmation of library quality |
5.0 Government Furnished: N/A 6.0 Travel: N/A 7.0 Contractor’s Key Personnel: Contractor must have laboratory staff experienced in assaying the quality of libraries and running the instruments.
8.0 Security Requirements: Data submission portal will be password protected.
9.0 Data Rights: The data will be solely owned by the government and the contractor will have no rights or obligations to the data once it is transferred.
10.0 Performance Requirement Measures: {Indicate how the government will measure the contractor's performance for specific tasks or work critical to the mission essential items).
· Payment deduction is generally a remedy for non-performance, not as an incentive. Non-Monetary incentives may include award term contract arrangement (contractor is awarded periods of performance) or Past Performance for quality level of performance.
| Performance Objective |
| Required Task or Deliverable |
| Performance Standard |
| Method of Surveillance |
| Positive/Negative Incentive |
% for NOT meeting the Task
| Desired Outcome or what must be accomplished as the end result of this contract. |
| Stare the task or deliverable that must be accomplished for the desired result. |
| State error rates, accuracy rates, completion of milestones, cost control, etc. The government must set the standards. |
| (State the method and who performs the surveillance |
| Incentives can be monetary, non-monetary, realist, attainable and built on performance objectives and standards. Use positive or negative incentives when performance exceeds standard or is below standards. |
| Sequencing Library Preparation and Sequencing |
| Sequencing Library ( mRNA, WGS, bWGS) and sequencing data |
| Sufficient quality and quantity to meet the requested sequencing amounts |
| Inspection of run statistic report and assessment once data is received |
| 1% of service price every 1% decrease from requested sequencing amount |
-1% of lane price every 1% decrease from 80% Q30 of the requested sequencing amount.
| Metabolite Library Preparation and a measurement |
| Metabolite Library and target measurements |
| Sufficient quality and quantity to meet the requested amounts |
| Inspection of run statistic report and assessment once data is received |
| -1% of price every 1% decrease from expected amounts |
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