SBIR-STTR Award

The long-term goal of the proposed research is the design and construction of a DNA sequencing system that can sequence the whole human genome under $100 including sample preparation and with the cost of goods of the system well under $10,000. The system developed under the proposed research is at least an order of magnitude in cost better than the target of the solicitation while maintaining all performance metrics. In that respect it will break the barrier towards genomic medicine. The overall system is based on optically sequencing DNA on a consumer cell-phone camera chip by means of a transducer that relates the nanometer scale dynamics of single base of a DNA to a macro-motion that is easy to image without the use of fluorescence, but only with a single common white-light LED. Preliminary data shows that the proposed method can already achieve DNA readlength of 1,600 bases and accurate sequencing alignment of 100 base sections. While this is a great start, Phase I work will continue to investigate the accuracy and readlength and throughput limits of this approach. To achieve that, software tools such as image processing and bioinformatics need to be constructed at this first phase, while at same time we will need to improve the biology assays. If successful, the main goal is to completely sequence a microbial DNA (Ecoli) at the end of Phase I, and thus completely benchmark the proposed architecture. Beyond Phase I, a low cost benchtop system will be constructed using commercial cell-phone camera chips and will be used to perform sequencing of Whole Human Genome with the target cost defined as goal of this grant solicitation.

Public Health Relevance Statement:


Public Health Relevance:
Currently there are several commercial and under development DNA sequencing systems and although improvements in cost per base and cost for whole human genome have been tremendous, the goal of doing this with appropriate accuracy under $1000 has not yet been achieved. To address this, Eve Biomedical proposes to develop a compact DNA sequencing system that will be able to sequence the whole human genome under $100 i.e. an order of magnitude less than the target and including sample preparation and with the cost of goods of the system well under $10,000. It will break the barrier to introducing sequencing in clinical diagnostics and jump start the era of genomic medicine.

NIH Spending Category:
Bioengineering; Biotechnology; Genetics; HIV/AIDS; Human Genome

Project Terms:
Address; Affect; Architecture; base; Benchmarking; Bioinformatics; Biological Assay; Biology; Cellular Phone; Clinical; Clinics and Hospitals; Color; commercialization; Communities; cost; Data; design and construction; Detection; Development; Diagnostic; DNA; DNA Sequence; DNA-Directed RNA Polymerase; ds-DNA; Enzymes; Fluorescence; Genetic Transcription; Genome; genome sequencing; Genomics; Goals; Grant; Human; Human Genome; Image; image processing; improved; Length; Licensing; Light; Maps; Measurement; Mechanics; Medicine; Methodology; Methods; Metric; microbial; Microscope; Modification; Molecular Motors; Motion; mouse genome; Mutation; nanoscale; Noise; novel; Nucleotides; Optics; Performance; Phase; Plasmids; point-of-care diagnostics; Preparation; Process; Property; public health relevance; Reading; Reagent; Research; Resistance; Reverse Transcription; Rotation; Sampling; Sequence Alignment; Signal Transduction; single molecule; Software Tools; Staging; Surface; System; Technology; Testing; Time; tool; Transducers; Universities; Work

The long-term goal of the proposed research is the design and construction of a DNA sequencing system that can sequence the whole human genome under $100 including sample preparation and with the cost of goods of the system well under $10,000. The system developed under the proposed research is at least an order of magnitude in cost better than the target of the solicitation while maintaining all performance metrics. In that respect it will break the barrier towards genomic medicine. The overall system is based on optically sequencing DNA on a consumer cell-phone camera chip by means of a transducer that relates the nanometer scale dynamics of single base of a DNA to a macro-motion that is easy to image without the use of fluorescence, but only with a single common white-light LED. Preliminary data shows that the proposed method can already achieve DNA readlength of 1,600 bases and accurate sequencing alignment of 100 base sections. While this is a great start, Phase I work will continue to investigate the accuracy and readlength and throughput limits of this approach. To achieve that, software tools such as image processing and bioinformatics need to be constructed at this first phase, while at same time we will need to improve the biology assays. If successful, the main goal is to completely sequence a microbial DNA (Ecoli) at the end of Phase I, and thus completely benchmark the proposed architecture. Beyond Phase I, a low cost benchtop system will be constructed using commercial cell-phone camera chips and will be used to perform sequencing of Whole Human Genome with the target cost defined as goal of this grant solicitation.

Public Health Relevance Statement:


Public Health Relevance:
Currently there are several commercial and under development DNA sequencing systems and although improvements in cost per base and cost for whole human genome have been tremendous, the goal of doing this with appropriate accuracy under $1000 has not yet been achieved. To address this, Eve Biomedical proposes to develop a compact DNA sequencing system that will be able to sequence the whole human genome under $100 i.e. an order of magnitude less than the target and including sample preparation and with the cost of goods of the system well under $10,000. It will break the barrier to introducing sequencing in clinical diagnostics and jump start the era of genomic medicine.

Project Terms:
Address; Affect; Architecture; base; Benchmarking; Bioinformatics; Biological Assay; Biology; Cellular Phone; Clinical; Clinics and Hospitals; Color; commercialization; Communities; cost; Data; design and construction; Detection; Development; Diagnostic; DNA; DNA Sequence; DNA-Directed RNA Polymerase; ds-DNA; Enzymes; Fluorescence; Genetic Transcription; Genome; genome sequencing; Genomics; Goals; Grant; Human; Human Genome; Image; image processing; improved; Length; Licensing; Light; Maps; Measurement; Mechanics; Medicine; Methodology; Methods; Metric; microbial; Microscope; Modification; Molecular Motors; Motion; mouse genome; Mutation; nanoscale; Noise; novel; Nucleotides; Optics; Performance; Phase; Plasmids; point-of-care diagnostics; Preparation; Process; Property; public health relevance; Reading; Reagent; Research; Resistance; Reverse Transcription; Rotation; Sampling; Sequence Alignment; Signal Transduction; single molecule; Software Tools; Staging; Surface; System; Technology; Testing; Time; tool; Transducers; Universities; Work