Illumina Corporation

Sapphire Energy, Inc.

Spatial Transcriptomics Ab

Grail, Inc.

University of Tulsa

Spatial Transcriptomics Ab and Illumina, Inc.

Illumina France Sarl

10x Genomics Sweden Ab

Alex Aravanis

Gordon M Cann

Leila Bazargan

Joakim Lundeberg

Tarun Kumar Khurana

Boyan Boyanov

M Shane Bowen

Dale Buermann

Hai Quang Tran

Jonas Frisen

Behnam Javanmardi

Patrik Stahl

Richard J Cranford

Alexander Hsiao

Byoungsok Jung

Stilianos G Roussis

Frank J Steemers

Poorya Sabounchi

Arash Jamshidi

Jason L Pyle

Sebastian Bohm

Alex So

Hongxia Xu

Sante Gnerre

Daniel Crunkleton

Geoffrey L Price

Richard P Rava

Brian L Goodall

Steven Mark Barnard

Jeffrey G Mandell

Dietrich A Dehlinger

Jian-Bing Fan

Maria Candelaria Rogert Bacigalupo

Cyril Delattre

Shengrong Lin

Majid Aghababazadeh

Arnaud Rival

Emrah Kostem

Fiona Kaper

Bala Murali Venkatesan

Yan-You Lin

Zhihong Zhang

Dmitry K Pokholok

Jennifer Olivia Foley

Xuyu Cai

Craig A Behnke

Hamed Amini

Steven Norberg

Patrik Ståhl

Farnaz Absalan

Jonas Frisén

Neeraj Salathia

Daniel J Sajkowski

Rick Klausner

Majid Babazadeh

Dimitry K Pokholok

Methods for preparing enriched sequencing libraries from test samples that contain double-stranded deoxyribonucleic acid (dsDNA) are provided.

Enrichment of short nucleic acid fragments in sequencing library preparation

Systems and methods for conducting designated reactions utilizing a base instrument and a removable cartridge. The removable cartridge includes a fluidic network that receives and fluidically directs a biological sample to conduct the designated reactions. The removable cartridge also includes a flow-control valve that is operably coupled to the fluidic network and is movable relative to the fluidic network to control flow of the biological sample therethrough. The removable cartridge is configured to separably engage a base instrument. The base instrument includes a valve actuator that engages the flow-control valve of the removable cartridge. A detection assembly held by at least one of the removable cartridge or the base instrument may be used to detect the designated reactions.

Systems and methods for biochemical analysis including a base instrument and a removable cartridge

The disclosed embodiments concern methods, apparatus, systems and computer program products for determining sequences of interest using unique molecular index (UMI) sequences that are uniquely associable with individual polynucleotide fragments, including sequences with low allele frequencies and long sequence length. In some implementations, the UMIs include both physical UMIs and virtual UMIs. In some implementations, the unique molecular index sequences include non-random sequences. System, apparatus, and computer program products are also provided for determining a sequence of interest implementing the methods disclosed.

Error suppression in sequenced DNA fragments using redundant reads with unique molecular indices (UMIS)

Systems and methods for conducting designated reactions that include a fluidic network having a sample channel, a reaction chamber, and a reservoir. The sample channel is in flow communication with a sample port. The system also includes a rotary valve that has a flow channel and is configured to rotate between first and second valve positions. The flow channel fluidically couples the reaction chamber and the sample channel when the rotary valve is in the first valve position and fluidically couples the reservoir and the reaction chamber when the rotary valve is in the second valve position. A pump assembly induces a flow of a biological sample toward the reaction chamber when the rotary valve is in the first valve position and induces a flow of a reaction component from the reservoir toward the reaction chamber when the rotary valve is in the second valve position.

Systems and methods including a rotary valve for at least one of sample preparation or sample analysis

A method for spatially tagging nucleic acids of a biological specimen, including steps of (a) providing a solid support comprising different nucleic acid probes that are randomly located on the solid support, wherein the different nucleic acid probes each includes a barcode sequence that differs from the barcode sequence of other randomly located probes on the solid support; (b) performing a nucleic acid detection reaction on the solid support to locate the barcode sequences on the solid support; (c) contacting a biological specimen with the solid support that has the randomly located probes; (d) hybridizing the randomly located probes to target nucleic acids from portions of the biological specimen; and (e) modifying the randomly located probes that are hybridized to the target nucleic acids, thereby producing modified probes that include the barcode sequences and a target specific modification, thereby spatially tagging the nucleic acids of the biological specimen.

Spatially distinguished, multiplex nucleic acid analysis of biological specimens

Provided herein are methods of enriching mutated cell free nucleic acids for detection and diagnosis of cancer. Also provided are methods using a CRISPR-Cas system to target and deplete unwanted more abundant cell free nucleic acid sequences thereby enriching for less abundant sequences.

Enrichment of mutated cell free nucleic acids for cancer detection

Aspects of the invention include methods for preparing sequencing libraries, performing sequencing procedures that can correct for process-related errors, and identifying rare variants that are or may be indicative of cancer.

Library preparation and use thereof for sequencing based error correction and/or variant identification

Presented herein are methods and compositions for multiplexed single cell gene expression analysis. Some methods and compositions include the use of droplets and/or beads bearing unique barcodes such as unique molecular barcodes (UMI).

Nucleic acid sequence analysis from single cells

The present disclosure relates to the field of molecular biology and more specifically to methods for capturing, amplifying and sequencing target polynucleotides on a solid surface.

Amplicon preparation and sequencing on solid supports

Growing community of inventors

San Diego, CA, United States of America

Alex Aravanis