Genotyping and Copy Number Analysis of Diffuse Large B Cell Lymphoma

The National Cancer Institute (NCI), Staudt Lab in the Lymphoid Malignancies Branch (LMB), plans to purchase services for Affymetrix Genome-Wide Human SNP Array 6.0 analysis from 300 DLBCL samples. This acquisition will be processed in accordance with simplified acquisition procedures as stated in FAR Part 13.106-1(b)(1). The North American Industry Classification System code is 541380 and the business size standard is $14.0 Million. Only one award will be made as a result of this solicitation. This will be awarded as a firm fixed price type contract. The period of performance shall be for two (2) months from date of award. It has been determined there are no opportunities to acquire green products or services for this procurement. The Staudt Lab in the Lymphoid Malignancies Branch at the National Cancer Institute is engaged in the study of lymphoma genomes. Investigating genomic structural variation, genetic alteration and its effect on the development and biology of lymphomas is an integral function of Lymphoid Malignancies Branch. By using ultra-high throughput, next generation sequencing applications, the lab studies sequence alterations, gene expression, DNA/promoter interactions, methylation status, single nucleotide polymorphism (SNP), and genomic rearrangements at very high resolution. The Staudt lab performs an integrative analysis of genetic lesions in 300 diffuse large B cell lymphomas (DLBCL) using high-throughput sequencing. The comprehensive analysis of the DLBCL genomes will be completed by genome wide copy number analysis. For this reason, Affymetrix SNP array 6.0 will be required. The use of Affymetrix SNP 6.0 arrays will be essential to maintain continuity with large copy number data sets generated on this platform by the TCGA project. Contractor requirements are: The contractor shall provide services for Affymetrix Genome-Wide Human SNP Array 6.0 analysis from 300 DLBCL samples. This work will involve the following: 1. Receive DNA shipped from NCI to the contractor's lab. 2. Use no more than 1 ug of genomic DNA. 3. Analyze the samples on the Affymetrix SNP Array 6.0: - Synthesize biotin labeled DNA hybridization targets. - Hybridize amplified DNA to Affymetrix arrays. - Stain and scan arrays. - Provide genotyping results in electronic format. - Provide quality control, raw data and analysis reports (standard Affymetrix output files for averaged cell intensities and analysis output). 4. The contractor shall be responsible for the cost of all reagents (kits, arrays, etc.) required for the analysis. 5. Return all unused DNA to NCI. Reporting Requirements and Deliverables: After completion of the analysis the contractor shall provide the COR all standard Affymetrix output files as well as summary tables which describes the basic quality information for each sample (Call rates, HET Rates, Contrast QC scores, etc.) delivered for each specimen analyzed. Government Responsibilities: COR will review and approve deliverables within two weeks of reception of the completion report by the contractor to assure that requirements set forth in this statement of work are met. Inspection and Acceptance Criteria: The delivery of results of the data generated will be inspected and approved by COR within four weeks of receipt of the final completion report. Potential offerors may request a copy of the solicitation from Reyes Rodriguez, Contract Specialist via electronic mail at contact@example.gov or fax +1 (555) 000-0000. Interested parties shall include the name of company; complete mailing address; point of contacts, phone, fax numbers, and email address; company DUNS number and business size. All questions shall be in writing and may be addressed to the aforementioned individual noted above. No collect calls will be accepted. In order to receive an award, contractors must be registered and have valid certification in the Central Contractor Registration (CCR) and the Online Representations and Certifications Applications (ORCA) through sam.gov. Reference: N02RC42512-57 on all correspondence.