10x Genomics, Inc.

Rajiv Bharadwaj

Anthony Makarewicz

Kevin D Ness

Serge Saxonov

Michael Schnall-Levin

Christopher Hindson

Bill Kengli Lin

Benjamin J Hindson

Tobias Daniel Wheeler

Augusto Manuel Tentori

Donald Masquelier

Hanyoup Kim

Mohammad Rahimi Lenji

Andrew D Price

Xinying Zheng

Katherine Pfeiffer

Debkishore Mitra

Yifeng Yin

Felice Alessio Bava

Phillip Belgrader

Pranav Patel

Paul Hardenbol

Zachary Bent

Zahra Kamila Belhocine

Steven W Short

Mirna Jarosz

Vijay Kumar Sreenivasa Gopalan

Alireza Salmanzadeh

Siyuan Xing

John R Stuelpnagel

Michael Ybarra Lucero

Tarjei Sigurd Mikkelsen

Geoffrey McDermott

Paul Ryvkin

Jessica Michele Terry

Cedric Uytingco

Josephine Harada

Elliott Meer

Solongo B Ziraldo

David Maurice Cox

Niranjan Srinivas

Indira Wu

Stephane Claude Boutet

Sarah Taylor

Christopher Joachim O'Keeffe

Zeljko Dzakula

Joakim Lundeberg

Denis Pristinski

Kamila Belhocine

Eswar Prasad Ramachandran Iyer

Caroline Julie Gallant

Jennifer Chew

Pratomo Alimsijah

Yiran Zhang

Linda Kvastad

Martin Sauzade

Mima Jarosz

Fernandino Valdecanas

Meghan L F Frey

Jorge Bernate

Nabil Mikhaiel

Erica Graziosa

Lynna Chen

Ivan Akhremichev

Eva Gracia Villacampa

Francis Marcogliese

Christopher Martin Hindson

Philip Belgrader

Kevin Dean Ness

Provided herein are methods of determining efficiencies of spatial transcriptomics methods.

Materials and methods for spatial transcriptomics

A microfluidic system for manipulating particles in a fluid is provided. The system includes a microfluidic chip having at least one channel and at least one filter feature, wherein the filter feature includes a field of physical obstacles configured and arranged to remove physical contaminants associated with the particles. The filter features are particularly suited to remove contaminants associated with gel beads manipulated by microfluidic handling.

Microfluidic on-chip filters

The present invention is directed to methods, compositions and systems for analyzing sequence information while retaining structural and molecular context of that sequence information.

Methods and compositions for nucleic acid analysis

Various implementations of electrophoretic systems and instruments are provided to improve electrophoresis and ease of use. Various electrophoretic systems and instruments utilize different electrode designs that can result in uniform electromigration of analytes. The electrophoretic systems and instrumentations optimize the size and/or location of electrodes relative to a sample, thereby increasing uniformity of electric field and reducing or minimizing drift of analyte migration. In addition, the electrophoresis systems and instruments provide a solution to conveniently check for electrical connections in the systems and instruments, and alert users of potential improper electrical connections, prior to performing electrophoresis.

Electrophoresis cassettes and instrumentation

A sample holder includes a first member featuring a first retaining mechanism configured to retain a first substrate that includes a sample, a second member featuring a second retaining mechanism configured to retain a second substrate that includes a reagent medium, and an alignment mechanism connected to at least one of the first and second members, and configured to align the first and second members such that the sample contacts at least a portion of the reagent medium when the first and second members are aligned.

Methods of capturing multiple analytes on a spatial array

The present disclosure provides methods and systems for nucleic acid processing. A method for preparing a sequencing set may include providing a template nucleic acid and amplifying the template nucleic acid to provide a complementary nucleic acid. Next, the complementary nucleic acid may be fragmented and barcoded to produce a first set of barcoded fragments comprising a plurality of first barcoded fragments. Next, the plurality of first barcoded fragments may be fragmented to yield a second set of barcoded fragments comprising a plurality of second barcoded fragments.

Systems and methods for nucleic acid preparation

Methods and systems for sorting particles are provided. Methods and systems for sorting cell beads are provided. In some cases, cell beads may be sorted from particles unoccupied with cell derivatives. In some cases, singularly occupied cell beads may be sorted from unoccupied particles and multiply occupied cell beads.

Methods for sorting particles

Provided herein are materials and methods for in situ labeling of a biological sample for use in spatial analysis of one or more analytes in the biological sample. In some aspects, in situ labeling of a biological sample includes labeling the biological sample with one or more spatial barcodes.

In situ spatial barcoding

Devices, systems, and their methods of use, for generating and collecting droplets are provided. The device includes a collection region comprising a side wall canted at an angle. The invention further provides multiplex devices that increase droplet formation.

Devices, systems, and methods for increasing droplet formation efficiency

Methods and systems are provided for sample preparation techniques and sequencing of macromolecular constituents of cells and other biological materials.

Methods and systems for analysis

Methods and systems for droplet-based single cell barcoding

A method for aligning a sample to an array is provided. An image of sample image of a sample can be received by a data processor. The sample image having a first resolution. An array image including an overlay of an array with the sample and an array fiducial can be received by the data processor. The array image having a second resolution lower than the first resolution of the sample image. The sample image can be registered to the array image by aligning the sample image and the array image. An aligned image can be generated based on the registering. The aligned image can include an overlay of the sample image with the array. The aligned image can be provided by the data processor. A method for detecting fiducials associated with an array is provided. Systems and non-transitory computer readable mediums performing the method are also provided.

Sample handling apparatus and image registration methods

The present disclosure provides electrophoretic systems, methods and compositions for spatial analysis, which can serve to magnify or demagnify spatial resolution of analytes of interest that are captured using electrophoresis. Some implementations can use a diverging or converging electric field in an electrophoretic capture system. Such a divergent or convergent electric field, as opposed to a parallel electric field, can be generated by, for example, utilizing different sizes of electrodes associated with or imbedded in substrates. Also provided herein are electrophoretic systems, methods and compositions for spatial analysis, which can serve to selectively migrate one or more analytes from a region of interest in the biological sample for capture using electrophoresis.

Electrophoretic methods for spatial analysis

Devices, systems, and their methods of use, for generating droplets are provided. One or more geometric parameters of a microfluidic channel can be selected to generate droplets of a desired and predictable droplet size.

Droplet forming devices and system with differential surface properties

Devices and systems incorporating acoustic ordering and methods of use thereof

Growing community of inventors

Pleasanton, CA, United States of America

Rajiv Bharadwaj