D_Purchase Description.pdf

Version 11-30-2016-1 FAR Part 11—Describing Agency Needs

PURCHASE DESCRIPTION

1. Statement of Need and Purpose: The Computational Biology & Genomics Core is purchasing a new Oxford Nanopore PromethION 24 third generation sequencer.

Currently Oxford Nanopore sequencers are one of the most prevalent sequencing platforms for extra-long sequencing (over 1 kb in sequence length). With the continued refinements in the Nanopore sequencing technology, PromethION 24 has drastically increased output (six times than MinION) with cost of sequencing remaining almost the same. PromethION 24 can sequence about 100 whole human transcriptomes at a time, but it can also be run with only one sample at a time as well. This flexibility will be extremely beneficial to a aging research.

2. Background Information and Objective: Computational Biology & Genomics Core is the only core at NIA Baltimore campus catering the unique next generation sequencing and data analysis needs of the NIA IRP investigators and thereby helping to fulfil NIA’s goal is to promote aging-related research. Next Generation sequencing (NGS) technology continues to grow rapidly in a multitude of directions. Experimental based sequencing projects often include different types of extracted (Single-cell RNA-Seq, Total RNA-Seq, DNA Methylation studies) or enriched (ChIP-Seq, CLIP-Seq, lncRNA, microRNA, and circRNA) nucleic acid molecules. The rapid growth in NGS technology has included new variations on experimental approaches, as well as new sample preparation kits, greatly expanding the diversity of experimental applications where NGS is applied. This expanded capability has increased the interest in NGS in our institute which has been reflected in the numerous “Three-lab projects” using this cutting-edge technology. Moreover, there is an increased interest in studying alternative splicing in context of Aging and age-related diseases using extra-long read sequencing. This has necessitated the need for new sequencing instruments to keep up with the increased demand and reduce the cost of extra-long read sequencing.

3. Generic Name of Product: Sequencer

4. Purchase Description:

(1) Specify trade name

Oxford Nanopore Technologies

(2) Specify product’s brand name

PromethION 24

(3) Specify manufacturer's name

Oxford Nanopore

(4) Specify model, type, catalog, and/or part number(s)

Version 11-30-2016-1 FAR Part 11—Describing Agency Needs

PromethION 24, PRM24BasicSP (Parts: PRO-SEQ024LOAN, PRO-PRC024, EXP- WSH004 (Qty: 10), SQK-LSK109 (Qty: 20), EXP-FLP002 (Qty: 20), FLO-PRO002 (Qty: 30), EXP-CTL001, SUPP-OSA, SLW12M)

5. Salient characteristics PromethION 24 has drastically increased output (six times than MinION) with cost of sequencing remaining almost the same. PromethION 24 can sequence about 100 whole human transcriptomes at a time, but it can also be run with only one sample at a time as well. This flexibility will be extremely beneficial to a wide range of projects. Most importantly, we can fully characterize transcript isoforms, splice variants, and fusion transcripts. For example, tens of donor RNA samples can be accommodated in a single run (Sen, LMBI & Ferrucci, TGB) or a few experimental samples can be sequenced equally effectively (Gorospe, Maragkakis, LGG) to find age-related changes in RNA decay. The same holds true for IgH locus (Sen, LMBI). The new machine will also immensely benefit age associated changes in DNA methylation (Ferrucci, TGB) and RNA base modification (Gorospe, LG), just to name a few.

6. Quantity: 1

7. Delivery Date: August 2021

8. Period of Performance: N/A

9. Option(s): PromethION 4 Flow Cell Pack: Quantity 30 (120 Flow Cells in total).