10X Genomics, Inc.

Integrated Dna Technologies, Inc.

Foundation Medicine, Inc.

Roche Finance Ltd

Mirna Jarosz

Michael Schnall-Levin

Serge Saxonov

Benjamin J Hindson

Kevin D Ness

Christopher Hindson

Paul Hardenbol

Xinying Zheng

Donald Masquelier

Zachary Zwirko

Doron Lipson

Phillip Belgrader

Rajiv Bharadwaj

Joseph Alan Walder

Caifu Chen

Yu Zheng

Mark Aaron Behlke

Roman Yelensky

Philip James Stephens

Patrick Marks

Geoffrey Alan Otto

Alexander Nevin Parker

Sean R Downing

Mikhail G Shapiro

Kristina Giorda

John Robert Havens

Frank Soo Juhn

John R Stuelpnagel

Andrew D Price

Jessica Michele Terry

Yuan Li

Sofia Kyriazopoulou-Panagiotopoulou

Landon Merrill

Madelyn Light

Jiashi Wang

Patrice Mudivarti

Heather Ordonez

William Haynes Heaton

Joseph Walder

Christopher Martin Hindson

Philip Belgrader

Kevin Dean Ness

Scott Daniel Rose

The present disclosure relates to methods, compositions and systems for haplotype phasing and copy number variation assays. Included within this disclosure are methods and systems for combining the barcode comprising beads with samples in multiple separate partitions, as well as methods of processing, sequencing and analyzing barcoded samples.

Analysis of nucleic acid sequences

The invention described herein solves challenges in providing a proficient, rapid and meaningful analysis of sequencing data. Methods and computer program products of the invention allow for a system to receive, analyze, and display sequencing data in real-time. The invention provides solutions to several difficulties encountered in assembling short sequencing-reads, and by doing so the invention improves the worth and significance of sequencing data.

Sequencing methods

A method of analyzing a tumor sample comprising:

Optimization of multigene analysis of tumor samples

This disclosure provides methods and compositions for sample processing, particularly for sequencing applications. Included within this disclosure are bead compositions, such as diverse libraries of beads attached to large numbers of oligonucleotides containing barcodes. Often, the beads provides herein are degradable. For example, they may contain disulfide bonds that are susceptible to reducing agents. The methods provided herein include methods of making libraries of barcoded beads as well as methods of combining the beads with a sample, such as by using a microfluidic device.

Methods and systems for processing polynucleotides

The present invention is directed to methods, compositions and systems for capturing and analyzing sequence information contained in targeted regions of a genome. Such targeted regions may include exomes, partial exomes, introns, combinations of exonic and intronic regions, genes, panels of genes, and any other subsets of a whole genome that may be of interest.

Methods and compositions for targeted nucleic acid sequencing

The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing.

The invention pertains to construction of next-generation DNA sequencing (NGS) libraries for whole genome sequencing, targeted resequencing, sequencing-based screening assays, metagenomics, or any other application requiring sample preparation for NGS.

Construction of next generation sequencing (NGS) libraries using competitive strand displacement

Compositions and methods for sample processing

The invention is directed to modified oligonucleotide compositions and methods for selectively reducing unwanted nucleic acid contaminants and enriching for desired nucleic acid targets from complex genomic nucleic acid mixtures for sequencing applications. The modified oligonucleotide compositions include one or more modified groups that increase the Tof the resultant oligonucleotide composition.

T-enhanced blocking oligonucleotides and baits for improved target enrichment and reduced off-target selection

The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing. In some cases, this disclosure provides methods for the generation of polynucleotide barcode libraries, and for the attachment of such polynucleotides to target polynucleotides.

The present invention is directed to methods, compositions and systems for analyzing sequence information from targeted regions of a genome. Such targeted regions may include regions of the genome that are poorly characterized, highly polymorphic, or divergent from reference genome sequences.

Methods and compositions for targeted nucleic acid sequence coverage

Growing community of inventors

Mountain View, CA, United States of America

Mirna Jarosz