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Denmark-Copenhagen: Miscellaneous evaluation or testing instruments
Voluntary ex ante transparency notice
Section I: Contracting authority/entity
Section II: Object
Acquisition of a Oxford Nanopore Promethion 24
The Promethion will purchased from Oxford Nanopore Technologies (ONT), and involves a sequencing machine and regular shipments of chemistry kits used for sequencing. The unique machine is able to generate single molecule sequencing reads spanning hundreds of kilobases in real-time. The machine will be used by BRIC researchers to perform nucleic acid sequencing of biological material. The equipment will be placed in the sequencing core at BRIC.
ONT was founded in 2005 to develop a disruptive, electronic, single molecule sensing system based on nanopore science. The company has a unique nanopore platform that uses ion current changes across the pore to identify nucleotide composition of long nucleic acid molecules.
Section IV: Procedure
The ONT sequencing machine will be able to provide unprecedented resolution of genetic and epigenetic alterations in both patient-derived tissue and various biological models, ranging from bacteria and viruses to complex organisms, such as higher plants and mammals. Several important projects require the usage of ONT including:
Genome phasing and resolving complex SVs, mRNA isoforms, RNA degradation, RNA splicing isoforms in mouse models, RNA ribosome modifications, DNA methylation modifications.
Oxford Nanopore has a broad patent portfolio, through in-house development and licensing agreements with third parties. Oxford Nanopore has an intellectual property portfolio of more than 650 issued patents and patent applications, in over 200 patent families. These cover all aspects of nanopore sensing including fundamental patents for nanopore sensing, and patents relating to DNA-sequencing.
List of patents: https://patents.justia.com/assignee/oxford-nanopore-technologies-limited
The following themes are included in Oxford Nanopore's patent portfolio:
• DNA base identification using a biological nanopore;
• addition of adapters to nanopores for sensing;
• modified nanopores for sensing;
• use of molecular motors in combination with nanopores;
• localising polymerases to a surface, including pore-bound localisation;
• use of solid-state nanopores for detecting labelled ssDNA and dsDNA;
• use of solid-state devices to control movement of polymers;
• detection and positional measurement of probes on a DNA strand as the strand passes through a nanoscale detector;
• methods of fabricating solid-state nanopores including multi-layered devices;
• the use of functionalised solid-state nanopores for molecular characterisation, including graphene, tunnelling currents and nanotubes;
• time-based multiplexed nanopore measurements on a single chip, including the incorporation of 96 well plate;
• use of voltage to control DNA under feedback;
• measurement of DNA interacting with a limited volume, such as a polymerase on a surface;
• array chip for parallel sensing from multiple channels;
• sequencing by means of detection of products of enzymatic action on DNA/RNA using a nanopore;
• the use of multiple 'nodes' to analyse samples in a federated/clustered manner to reduce the time to result, and improve operating efficiencies;
• methods and algorithms for nanopore signal analysis;
• Nanopore arrays/nanopore array structures;
• Direct RNA sequencing;
• protein characterisation using nanopores;
• chip/array architecture;
• methods of sensitivity enhancement.
Section V: Award of contract/concession
Section VI: Complementary information