25 results about "Library preparation" patented technology

This document relates to compositions, kits, and methods for isolating target polynucleotides, provides oligomers, compositions, kits, and methods for capturing target polynucleotides, for example, for downstream applications such as amplification, library preparation, or sequencing. In some embodiments, a capture oligomer comprising a capture sequence that anneals to a complementary sequence is provided or used, the capture sequence can prevent capture until the complementary sequence is displaced in a target-polynucleotide dependent manner. In some embodiments, the amount of captured target polynucleotides is less than or equal to a predetermined amount.

1. Name of the product in this design: Packaging box (Free DNA Library Preparation Kit JKEasy). 2. Purpose of this design: As a packaging box. 3. The key design elements of this product are the combination of shape, pattern, and color. 4. The image or photograph that best illustrates the key design points: Design 1 3D view. 5. The design for which protection is sought includes color. 6. The bottom surface of this design product is a part that is not easily seen or not visible during use, so the bottom view of Design 1 is omitted; the bottom surface of this design product is a part that is not easily seen or not visible during use, so the bottom view of Design 2 is omitted. 7. Design 1 is designated as the basic design.

Provided are DNA library preparation methods and compositions that duplicate a target nucleic acid sequence. A target DNA template including the target sequence is circularized via an end adapter to form a circular construct, which is bidirectionally extended by a polymerase-mediated extension that is initiated at nick sites of the end adapter. Following polymerase-mediated extension, a double-length DNA template is formed that includes two copies of the target DNA template (and hence two copies of the target sequence). Each strand of the double-length DNA template includes a parental polynucleotide strand joined to a newly synthesized daughter strand copy of the parental polynucleotide strand. Predetermined sequences can be included in the double-length DNA template, such a primer sequences, unique molecule identifiers, and sequence indexes. Sequencing of the double-length DNA template can reveal genetic / epigenetic information associated with the target sequence. Also provided are methods to create asymmetric and multi-length DNA template constructs.

The present disclosure relates, in general, to methods for improving preparation of a spatial transcriptomics RNA, library, for example a mRNA library, by improving capture of RNA transcript information from a tissue sample in situ. The spatial transcriptomics library from a tissue sample is useful to determine a genetic profile and help diagnose a person who has or is at risk of having a disease, such as cancer, genetic disease, autoimmune disease, and other indications, and improve treatment of the subject.

The disclosure relates to methods for detecting somatic variants in the DNA of a subject having or suspected of having a disease or disorder, such as cancer. In some embodiments, the method for detecting somatic variants comprises partitioning the sample into at least a hypermethylated subsample. In some embodiments, the methods further comprise performing error-correcting sequencing library preparation using DNA from the sample or hypermethylated subsample thereof. In some embodiments, the method for detecting somatic variants comprises high stringency identification of somatic variants. In some embodiments, the methods provided herein are used determine the presence of minimum residual disease.

A method for multiplexed analysis of single nuclei is provided. The method pools nuclei from multiple independent biological samples before performing droplet-based capture for simultaneous single-nucleus RNA sequencing (snRNA-seq) and ATAC sequencing (snATAC-seq). The method involves using custom Tn5 transposomes loaded with sample-specific barcoded oligonucleotides to tag open chromatin within the nuclei of each sample. After the barcoding transposition reaction, the nuclei from all samples are pooled and processed in a single reaction for nuclei capture, sequencing library preparation, and sequencing. Subsequent data pre-processing allows for the computational demultiplexing of reads based on the sample-specific barcode.

There is described herein, a method of capturing cell-free methylated DNA from a sample having less than 100 mg of cell-free DNA, comprising the steps of: subjecting the sample to library preparation to permit subsequent sequencing of the cell-free methylated DNA; adding a first amount of filler DNA to the sample, wherein at least a portion of the filler DNA is methylated; denaturing the sample; and capturing cell-free methylated DNA using a binder selective for methylated polynucleotides.

The application belongs to the technical field of heparin extraction, and particularly relates to a method for determining the abundance of high anti-IIa activity heparin of pig small intestinal mucosa. The method comprises the following steps: (1) crushing fresh pig small intestinal mucosa; (2) using a PowerSoil kit to lyse the mucosa cells crushed in step (1), and performing water bath at 50-65 DEG C for 10-20 min, and then adding an elution buffer to elute the DNA; (3) using PCR to amplify the eluted DNA solution; (4) using a Nextera XT DNA library preparation kit to construct a library, and then using an Illumina NovaSeq 6000 sequencer to perform high-throughput sequencing; (5) using a DADA2 process to denoise and remove chimeric sequences, and using a 97% similarity threshold to cluster to generate OTU, and using a Greengenes database to annotate; (6) then using an LEfSe algorithm to screen differential flora, and using a random forest model to predict heparin activity.

An automated library preparation system (1) includes a consumable item storage module (10) for storing a consumable item; a dispatching transfer module (30) capable of moving along a predetermined direction; a biochemical reaction module (20) including a plurality of biochemical reaction devices (21a, 21b) which are arranged in turn along the predetermined direction, each of the plurality of biochemical reaction devices being configured to perform one subprocess of sample preparation for gene sequencing, the dispatching transfer module (30) being configured to grab the consumable item (2) stored in the consumable item storage module, the dispatching transfer module being further configured to transfer the consumable item to the plurality of biochemical reaction devices when sliding along the predetermined direction; and a control module configured to control the consumable item storage module, the biochemical reaction module, and the dispatching transfer module to work collaboratively.

The present disclosure provides methods for reducing sequencing errors comprising one or any combination of: (i) removing deaminated bases in any nucleic acid molecule throughout a library preparation workflow which includes immobilised splints which bind to the library, the use of a compaction oligonucleotide, optionally with an intervening sequence, formation of closed circular nucleic acids, creating gaps using glycosylase and lyase activities at positions with deaminated bases. The library may be sequenced using pairwise sequencing, e.g. with dark sequencing and / or sequencing using a multivalent labelled probe for the formation of an avidity molecule and soluble primer and polymerase. Method for sequencing concatemers in which the concatermers are contacted with polymerases, soluble primers and a multivalent labelled molecule which forms a complex with the polymerase. Detecting polymerase position and nucleobase bound to the polymerase in the complex. These methods generate higher quality base calls during downstream sequencing workflows.

This document relates to compositions, kits, and methods for isolating target polynucleotides, and provides oligomers, compositions, kits, and methods for capturing target polynucleotides, for example, for downstream applications such as amplification, library preparation, or sequencing. In some embodiments, a capture oligomer comprising a capture sequence annealed to a complementary sequence is provided or used, the capture sequence preventing capture until the complementary sequence is substituted in a target-polynucleotide-dependent manner. In some embodiments, the amount of target polynucleotide captured is less than or equal to a predetermined amount.

Provided herein are methods of preparing a polypeptide sample and methods of protein analysis. Also provided herein are compounds of Formula (I), (II), and (III), and use thereof, including in methods of protein digestion.

1. Name of the product in this design: High-throughput library preparation, hybridization, sequencing and interpretation device. 2. Intended use of this design: for gene testing, etc. 3. The key design feature of this product is its shape. 4. The image or photograph that best illustrates the design's key points: a 3D model.

A method of preparing a library of tagged nucleic acid fragments including contacting a population of cells directly with a lysis reagent having one or more protease to generate a cell lysate; inactivating the protease to generate an inactivated cell lysate, and applying a transposase and a transposon end composition containing a transferred strand to the inactivated cell lysate under conditions wherein the target nucleic acid and the transposon end composition undergo a transposition reaction.

This invention relates to the field of early cancer diagnostic reagents, specifically to a non-invasive intelligent diagnostic kit for early colorectal cancer based on peripheral blood and its application. The kit targets key gene mutation sites (MLH1 c.113del A, MSH2 c.788del A, MUTYH c.1005 G>C, PMS2 c.288 C>T, and c.780 C>G) screened in the Chinese population and includes a specific primer set, circulating tumor DNA (ctDNA) extraction, and sequencing library preparation reagents. The accompanying detection system analyzes mutation data using a logistic regression model trained on the aforementioned sites to achieve early screening. Clinical trials have shown that this method has good performance in early colorectal cancer screening in the Chinese population.

Provided herein are systems, kits, compositions and methods for sequencing library preparation and sequencing workflow (e.g., for the identification of mutations). In certain embodiments, provides herein systems and methods to identically barcode both strands of templates, and PCR-based enrichment of each strand that does not require hybridization capture.

The present disclosure relates to a method of quadruple combinatorial indexing to mitigate the risk of index hopping when a large number of samples are analyzed in the same next-generation sequencing run. This disclosure describes a method to add unique sequences, called indexes, to each DNA fragment during library preparation, to allow a large number of samples to be analyzed in the same sequencing run with minimal cost and to minimize the risk of assignment of sequencing reads to the wrong sample during demultiplexing. The present disclosure provides methods, compositions, kits, systems, algorithm, and instruments that will mitigate the risk of index hopping when analyzing a large number of nucleic acid samples in the same next-generation sequencing run in comparison to conventional methodologies.

The present application relates to the application of graphene oxide in the preparation of single-stranded DNA secondary library for aptamer screening. Specifically, graphene oxide is incubated with the product after asymmetric PCR amplification, and the single-stranded DNA secondary library on graphene oxide can be obtained after centrifugation and washing. The method of the present application is simple, does not affect the specificity and affinity of aptamer, has the advantages of low cost and high efficiency, overcomes the problems of existing single-stranded DNA secondary library preparation methods, such as many steps, high operation requirements and high cost, and helps to screen high-quality aptamer.

Aspects of the present disclosure are directed to at least methods and compositions for generating sequencing libraries from an RNA sample. The RNA sample can be a low-input or ultra-low input sample.