Targeted Sequencing - Sample Enrichment Service

New “next-generation” high-throughput sequencing platforms, capable of generating massive amounts of reads very quickly, can be more effectively utilized for systematic and in-depth study of genetic variation by analyzing only certain targeted regions (subsets) rather than entire complex genomes.

LC Sciences provides a service for target-specific selection of a defined genomic region (such as Mbp region at a specific location, suspected cancer regions, SNP regions, regions for genomic comparisons) or RNA sequences (such as sets of transcriptome sequences known from previous screening experiments, mRNAs, and miRNAs).  This service enables you to take full advantage of new “next-generation” high throughput sequencing technologies.  More complete and accurate coverage is achieved by targeting only your regions of interest.  We offer broad coverage of genomics species - design and synthesis are based on a programmable digital platform.  There is no limit on your specifications - any species - any genomic region - contiguous or dispersed, small or large probe sets.

LC Sciences’ µParaflo^® biochip products are particularly well suited to provide target-specific sequence selection solutions.  Our high-density microfluidics chips enable massively parallel synthesis of target-specific, selection optimized oligonucleotides (probes) on-chip. [ Ref ]  Standard oligo synthesis chemistry and advance microfluidics design ensure high quality synthesis.  The µParaflo^®  biochips are used to select targets from genomic samples by directly applying to the biochip via microfluidics for on-chip sequence capture.  Enriched targeted regions are recovered, ready for sequencing.

Proven Technology

LC Sciences now extends its proven custom microarray synthesis technology to sequencing applications.  This technology has been repeatedly demonstrated as very effective for various applications since 2004.

DNA Capture on Chip for Synthetic Gene Applications
Tian, J., Gong, H., Sheng, N., Zhou, X., Gulari, E., Gao, X., and Church, G. (2004) Accurate multiplex gene synthesis from programmable DNA chips. Nature 432, 1050-54. [abstract]

ncRNA Capture for Functional Discoveries
Vagin VV, Sigova A, Li C, Seitz H, Gvozdev V, Zamore PD. (2006) A distinct small RNA pathway silences selfish genetic elements in the germline. Science 313(5785), 320-24.  [abstract]

Protein Capture for Studies of Transcription Activation
Anbanandam A, Albarado DC, Nguyen CT, Halder G, Gao X, Veeraraghavan S. 2006) Insights into transcription enhancer factor 1 (TEF-1) activity from the solution structure of the TEA domain. Proc Natl Acad Sci USA 103(46), 17225-30. [abstract]

Advantages

• Take full advantage of new “next-generation” high throughput sequencing technologies - Complete / more accurate coverage is achieved by targeting only genomic regions of interest.
• Broad coverage of genomics species - Design and synthesis are based on a programmable digital platform.  There is no limit on your specifications - any species - any genomic region - contiguous or dispersed, small or large probe sets.
• Flexible probe design to meet your needs - Genomic region selection, specific subset of genes or sequences, optimization for copy uniformity, etc. are achieved by high quality probes.
• Enhanced data quality and delectability - Target only customer defined genetic elements (often representing only 1/1000 of a total genomic sample) to generate well-focused and revealing data for low abundant sequences.
• Eliminate the time, cost, and performance limitations of highly multiplexed PCR.

Applications

• Target-specific selection of a defined genomic region (such as Mbp region at a specific location, suspected cancer regions, SNP regions, regions for genomic comparisons).
• Target-specific selection of RNA sequences, such as sets of transcriptome sequences known from previous screening experiments, mRNAs, and miRNAs.
• General use of the capture probes on microarray for enrichment or depletion of certain sequences, such as depletion of those which interfere with sequencing reactions or high abundance repeating sequences. 
• Purification of the sequences to enable multiplexing, high coverage, and high dynamic range  sequencing.

Sequence Capture Service

• Contact us to discuss project objectives.
• Finalize probe design.
• Send us your samples.
• Synthesize and QC target-specific probes.
• QC received sample, hybridization, sequence recovery, final sequencing sample prep and QC of final product.
• Deliver final product ready for high-throughput sequencing.

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