Inactive

SOLICITATION NUMBER: NIH-NINDS-NOI-22-000927 TITLE: Loop Genomics Long-Read, Probe Capture-BasedTranscriptome Sequencing CLASSIFICATION CODE: Q301 Medical- Laboratory Testing NAICS CODE: 621511 - Medi... SOLICITATION NUMBER: NIH-NINDS-NOI-22-000927 TITLE: Loop Genomics Long-Read, Probe Capture-BasedTranscriptome Sequencing CLASSIFICATION CODE: Q301 Medical- Laboratory Testing NAICS CODE: 621511 - Medical Laboratories RESPONSE DATE: November 12, 2021 PRIMARY POINT OF CONTACT: Shayna Simpson, Contract Specialist NINDS Contracts Management Branch, NIDA Shayna.Simpson@nih.gov DESCRIPTION: THIS IS A PRE-SOLICITATION NOTICE OF INTENT TO AWARD ON A SOLE SOURCE BASIS. THIS IS NOT A REQUEST FOR QUOTE/PROPOSALS. On behalf of the National Institute of Neurological Disorders and Stroke (NINDS), the Office of Acquisitions Contracts Management Branch Red, NINDS Section of the National Institute on Drug Abuse (NIDA), intends to solicit on a sole-source basis by a request for quotation to Loop Genomics to provide Loop Genomics Long-Read, Probe Capture-BasedTranscriptome Sequencing on or around November 13, 2021, with an award issued on or around November 15, 2021. The purpose of this acquisition is to acquire: (1) probe design, (2) probe synthesis, (3) sample preparation and (4) sequencing and data analysis through DNA Probe Capture. The Infections of the Nervous Systems Section (INSS), NINDS lab requires Loop Genomics Long-Read, Probe Capture-BasedTranscriptome Sequencing to be able to identify potential polymorphic Human Endogenous Retrovirus K (HERV-K) integration in Amyotrophic Lateral Sclerosis (ALS). Loop Genomics shall provide the Loop Genomics Long-Read, Probe Capture-BasedTranscriptome Sequencing service. These services shall be provided by Loop Genomics Broad, the owner of the proprietary processes. NORTH AMERICAN INDUSTRY CLASSIFICATION SYSTEM (NAICS) CODE and SET ASIDE STATUS The intended procurement is classified under NAICS code 621511 with a Size Standard of $35M. This acquisition is NOT set aside for small businesses, but rather is a sole-source acquisition to Loop Genomics Facility, 5941 Optical Court, San Jose, CA 95138. REGULATORY AUTHORITY This acquisition is conducted under the authority of the Federal Acquisition Regulations (FAR) Subpart 13.106-1 (b) Soliciting from a single source. BACKGROUND, PURPOSE AND OBJECTIVES OF REQUIREMENT The National Institute of Neurological Disorders and Strokes (NINDS) supports research into the causes, treatment, and prevention of neurological disorders and stroke. This request originates from the NINDS, the Infections of the Nervous Systems Section (INSS) lab. The Infections of the Nervous Systems Section lab previous study has shown that abnormal HERV-K activation and Env protein expression may contribute to the neuropathology of ALS. The mechanism of HERV-K activation is still unknown. The lab hypothesis is that potential polymorphic HERV-K integration in specific chromosomal locus may lead to increased expression of HERV-K in the brain of ALS patients. Because there are about 100 copies of relatively intact HERV-K loci as well as many more solitary HERV-K LTRs in human genome, it is challenging by normal next generation sequencing platforms to identify such polymorphic HERV-K locus. The LoopGenomics utilizes molecular level indexing to make sequencing library and improves repetitive sequencing accuracy with synthetic long read sequencing methodology. By accurate profiling of all HERV-K loci, potential ALS associated polymorphic HERV-K could be identified and characterized. The INSS lab require targeted sequencing for HERV-K in the genome of 79 ALS patients. This process is critical to the NIH scientific community in order to continue to support cutting-edge research conducted by the Infections of the Nervous Systems Section. CONTRACTING WITHOUT PROVIDING FOR FULL OR OPEN COMPETITION (INCLUDING BRAND-NAME) DETERMINATION Loop Genomics established the proprietary sequencing system. They are the only contractor authorized and capable of providing the processes to analyze samples and has developed the Loop Genomics Long-Read, Probe Capture-Based Transcriptome Sequencing service. The INSS lab previous study has shown that abnormal HERV-K activation and Env protein expression may contribute to the neuropathology of ALS. The mechanism of HERV-K activation is still unknow. The lab hypothesis is that potential polymorphic HERV-K integration in specific chromosomal locus may lead to increased expression of HERV-K in the brain of ALS patients. Because there are about 100 copies of relatively intact HERV-K loci as well as many more solitary HERV-K LTRs in human genome, it is challenging by normal next generation sequencing platforms to identify such polymorphic HERV-K locus. The LoopGenomics utilizes molecular level indexing to make sequencing library and improves repetitive sequencing accuracy with synthetic long read sequencing methodology. By accurate profiling of all HERV-K loci, potential ALS associated polymorphic HERV-K could be identified and characterized. The Loop Genomics Long-Read, Probe Capture-Based Transcriptome Sequencing is a sole source service. No other company makes a similar or competing services. The process is a sole source service, sold and marketed exclusively by Loop Genomics. Loop Genomics provided INSS with the identical services. To maintain consistency of methods and data analysis, Loop Genomics is the only vendor available to perform these experiments. There are no substitutes available. Loop Genomics has performed the Long-Read, Probe Capture-Based Transcriptome Sequencing of other samples targeted sequencing for HERV-K in the genome of ALS patients associated with this project. In order to maintain consistency and scientific reproducibility, Loop Genomics is the only vendor that can provide the Long-Read, Probe Capture-Based Transcriptome Sequencing service for this project. In accordance with FAR part 10, extensive market research was conducted to reach this determination. Specifically, contact with knowledgeable individuals both in industry and Government, as well as reviews of available product literature, revealed no other sources. A review of previous Government acquisitions returned no results that meet all requirements. Therefore, only Loop Genomics, is found to be capable of meeting the needs of this unique requirement. The intended source is: Loop Genomics 5941 Optical Court San Jose, CA 95138 USA Salient characteristics: Loop Genomics Long-Read, Probe Capture-Based Transcriptome Sequencing. The contractor should provide DNA Probe Capture: a) probe design; b) probe synthesis; c) sample preparation; and d) sequencing and data analysis. Estimated Delivery Date: 60 days after receipt of order Place of Performance: Loop Genomics Facility 5941 Optical Court San Jose, CA 95138 USA Contract Type: A firm-fixed price type contract is planned for this acquisition, consistent with commercial practices. CLOSING STATEMENT THIS NOTICE OF INTENT TO AWARD ON A SOLE-SOURCE BASIS IS NOT A REQUEST FOR COMPETITIVE PROPOSALS. However, interested parties may identify their interest and capability to respond to this notice. A determination by the Government not to compete this proposed contract based upon responses to this notice is solely within the discretion of the Government. All responsible sources may submit a capability statement, proposal, or quotation which shall be considered by the agency. The information received will normally be considered solely for the purposes of determining whether to proceed on a non-competitive basis or to conduct a competitive procurement. Responses to this notice shall contain sufficient information to establish the interested parties' bona-fide capabilities for fulfilling the requirement and include: unit price, list price, shipping and handling costs, the delivery period after contract award, the prompt payment discount terms, the F.O.B. Point (Destination or Origin), the Dun & Bradstreet Number (DUNS), the Taxpayer Identification Number (TIN), and the certification of business size. All offerors must have an active registration in the System for Award Management (SAM) www.sam.gov. All responses must provide evidence that they can provide equipment that meets all of the requirements in this announcement. All responses must be received by the closing date and time of this announcement and must reference the solicitation number, NIH-NINDS-NOI-22-000927. Responses must be submitted electronically to Shayna Simpson, Contract Specialist, Contracts Management Branch – Red, NINDS Section, NIDA, at Shayna.Simpson@nih.gov. U.S. Mail and Fax responses will not be accepted.