Abstract: The present disclosure relates to new compounds and their use as fluorescent labels. The compounds may be used as fluorescent labels for nucleotides in nucleic acid sequencing applications.
Type:
Grant
Filed:
May 6, 2015
Date of Patent:
April 12, 2016
Assignee:
Illumina Cambridge Limited
Inventors:
Xiaohai Liu, Nikolai Nikolaevich Romanov
Abstract: The invention relates to an additive which can be added to buffers used in nucleotide detection processes and improved methods of nucleic acid sequencing using this additive. In particular the invention relates to use of the additive to improve the efficiency of fluorescence-based multiple cycle nucleic acid sequencing reactions.
Type:
Grant
Filed:
June 3, 2014
Date of Patent:
April 5, 2016
Assignee:
Illumina Cambridge Limited
Inventors:
Milan Fedurco, Anthony Romieu, Gerardo Turcatti
Abstract: The invention relates to methods for pairwise sequencing of a double-stranded polynucleotide template, which methods result in the sequential determination of nucleotide sequences in two distinct and separate regions of the polynucleotide template. Using the methods of the invention it is possible to obtain two linked or paired reads of sequence information from each double-stranded template on a clustered array, rather than just a single sequencing read from one strand of the template.
Type:
Application
Filed:
October 12, 2015
Publication date:
March 31, 2016
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Roberto Rigatti, Tobias William Barr Ost
Abstract: Presented herein are recombinases for improved recombinase-mediated amplification of nucleic acids, such as a PCR-library having single-stranded adapter regions, on a patterned flow cell surface for improved cluster amplification, as well as methods and kits using the same.
Type:
Application
Filed:
September 29, 2015
Publication date:
March 31, 2016
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Erin Bomati, Matthew William Kellinger, Jonathan Mark Boutell
Abstract: The invention relates to methods for pairwise sequencing of a double-stranded polynucleotide template, which permit the sequential determination of nucleotide sequences in two distinct and separate regions on complementary strands of the double-stranded polynucleotide template. The two regions for sequence determination may or may not be complementary to each other.
Abstract: An apparatus and method for applying a chemistry to samples of interest are provided. The apparatus and method include a flexible tape mounted on an arrangement of guide rollers. Samples of interest (e.g., clusters of DNA templates) are bound to at least one surface of the flexible tape. The method and apparatus further comprise one or more read heads in relation to the flexible tape and a plurality of reservoirs along a path of the flexible tape. The reservoirs comprise liquids comprising chemical reagents for performing the chemistry on the samples of interest bound to the at least one surface of the flexible tape. The method and apparatus further comprise a drive system for driving at least one of the guide rollers to advance the flexible tape into and out of the reservoirs.
Type:
Application
Filed:
September 11, 2015
Publication date:
March 17, 2016
Applicant:
Illumina Cambridge Limited
Inventors:
Jonathan Mark Boutell, Gary Mark Skinner, Gareth Jenkins
Abstract: Modified DNA polymerases have an affinity for DNA such that the polymerase has an ability to incorporate one or more nucleotides into a plurality of separate DNA templates in each reaction cycle. The polymerases are capable of forming an increased number of productive polymerase-DNA complexes in each reaction cycle. The modified polymerases may be used in a number of DNA sequencing applications, especially in the context of clustered arrays.
Type:
Grant
Filed:
December 20, 2013
Date of Patent:
March 1, 2016
Assignee:
Illumina Cambridge Limited
Inventors:
Geoffrey Paul Smith, Roberto Rigatti, Tobias William Barr Ost, Shankar Balasubramanian, Raquel Maria Sanches-Kuiper
Abstract: The invention relates to methods for pairwise sequencing of a double-stranded polynucleotide template, which methods result in the sequential determination of nucleotide sequences in two distinct and separate regions of the polynucleotide template. Using the methods of the invention it is possible to obtain two linked or paired reads of sequence information from each double-stranded template on a clustered array, rather than just a single sequencing read from one strand of the template.
Type:
Grant
Filed:
May 19, 2014
Date of Patent:
February 23, 2016
Assignee:
Illumina Cambridge Limited
Inventors:
Roberto Rigatti, Tobias William Barr Ost
Abstract: Some embodiments described herein relate to modified nucleotide and nucleoside molecules with novel 3?-hydroxy protecting groups. Also provided herein are methods to prepare such modified nucleotide and nucleoside molecules and sequencing by synthesis processes using such modified nucleotide and nucleoside molecules.
Type:
Application
Filed:
March 15, 2013
Publication date:
January 7, 2016
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Xiaohai Liu, Xiaolin Wu, Geoffrey Paul Smith
Abstract: The present invention relates to new rhodamine compounds and their use as fluorescent labels. The compounds may be used as fluorescent labels for nucleotides in nucleic acid sequencing applications.
Type:
Grant
Filed:
May 2, 2014
Date of Patent:
December 29, 2015
Assignee:
Illumina Cambridge Limited
Inventors:
Nikolai Nikolaevich Romanov, Xiaohai Liu
Abstract: The invention relates to an additive which can be added to buffers used in nucleotide detection processes and improved methods of nucleic acid sequencing using the additive. In particular the invention relates to use of the additive to improve the efficiency of fluorescence-based multiple cycle nucleic acid sequencing reactions.
Type:
Grant
Filed:
December 13, 2005
Date of Patent:
December 22, 2015
Assignee:
Illumina Cambridge Limited
Inventors:
Milan Fedurco, Anthony Romieu, Gerardo Turcatti
Abstract: Presented are methods and compositions for preparing samples for amplification and sequencing. Particular embodiments relate to methods of obtaining nucleic acids material directly from tissues such as whole blood or FFPE samples.
Type:
Application
Filed:
June 8, 2015
Publication date:
December 10, 2015
Applicant:
Illumina Cambridge Limited
Inventors:
Louise Fraser, Paula Kokko-Gonzales, Andrew Slatter
Abstract: The present disclosure relates to the field of molecular biology and more specifically to methods for capturing and amplifying target polynucleotides on a solid surface.
Type:
Application
Filed:
July 10, 2015
Publication date:
December 10, 2015
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Roberto Rigatti, Niall Anthony Gormley, Allen E. Eckhardt, Jonathan Mark Boutell
Abstract: The invention relates to methods of generating templates for a nucleic acid sequencing reaction which comprise: providing at least one double-stranded nucleic acid molecule, wherein both strands of the double-stranded nucleic acid molecule are attached to a solid support at the 5? end, cleaving one or both strands of the double-stranded nucleic acid molecule, and subjecting the cleaved strand(s) to denaturing conditions to remove the portion of the cleaved strand(s) not attached to the solid support, thereby generating a partially or substantially single-stranded template for a nucleic acid sequencing reaction.
Type:
Application
Filed:
June 12, 2015
Publication date:
December 3, 2015
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Xiaohai Liu, John Milton, Geoffrey Paul Smith, Colin Lloyd Barnes, Isabelle Rasolonjatovo, Roberto Rigatti, Xiaolin Wu, Tobias William Barr Ost, Graham John Worsley, David James Earnshaw, Gerardo Turcatti, Anthony Romieu
Abstract: The present invention provides methods for creating an array of features on a surface based on content transferred from a plurality of beads to the surface. Nucleic acid content can be transferred using a method including the steps of (a) providing a surface having one or more primer oligonucleotides attached to the surface; (b) providing a pool of beads, wherein beads in the pool have a plurality of templates attached thereto, the plurality comprising multiple copies of a single nucleic acid template sequence; (c) arraying the beads onto the surface by hybridizing the templates to the primer oligonucleotides; and (d) extending the primers to produce copies of the templates attached to the surface.
Type:
Application
Filed:
June 5, 2015
Publication date:
November 26, 2015
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Roberto Rigatti, Geoffrey Paul Smith, Jonathan Mark Boutell
Abstract: The present disclosure relates to new compounds and their use as fluorescent labels. The compounds may be used as fluorescent labels for nucleotides in nucleic acid sequencing applications.
Type:
Application
Filed:
May 6, 2015
Publication date:
November 12, 2015
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Xiaohai Liu, Nikolai Nikolaevich Romanov
Abstract: The present disclosure relates to new polymethine compounds and their use as fluorescent labels. The compounds may be used as fluorescent labels for nucleotides in nucleic acid sequencing applications.
Type:
Grant
Filed:
March 2, 2015
Date of Patent:
October 13, 2015
Assignee:
Illumina Cambridge Limited
Inventors:
Nikolai Nikolaevich Romanov, Xiaohai Liu
Abstract: Presented are methods and compositions for using immobilized transposase and a transposon end for generating an immobilized library of 5?-tagged double-stranded target DNA on a surface. The methods are useful for generating 5?- and 3?-tagged DNA fragments for use in a variety of processes, including massively parallel DNA sequencing.
Type:
Application
Filed:
March 27, 2015
Publication date:
October 8, 2015
Applicant:
ILLUMINA CAMBRIDGE LIMITED
Inventors:
Niall Anthony Gormley, Geoffrey Paul Smith
Abstract: The invention provides a nucleotide or nucleoside having a base attached to a detectable label via a cleavable linker, characterized in that the cleavable linker contains a moiety selected from the group comprising: Formula (I) (wherein X is selected from the group comprising O, S, NH, and NQ wherein Q is a C1-10 substituted or unsubstituted alkyl group, Y is selected from the group comprising O, S, NH, and N(allyl), T is hydrogen or a C1-10 substituted or unsubstituted alkyl group and * indicates where the moiety is connected to the remainder of the nucleotide or nucleoside).
Type:
Grant
Filed:
November 6, 2013
Date of Patent:
September 8, 2015
Assignee:
Illumina Cambridge Limited
Inventors:
Xiaohai Liu, John Milton, Silke Ruediger
Abstract: The invention provides modified nucleotide or nucleoside molecule comprising a purine or pyrimidine base and a ribose or deoxyribose sugar moiety having a removable 3?-OH blocking group covalently attached thereto, such that the 3? carbon atom has attached a group of the structure —O—Z wherein Z is any of —C(R?)2-O—R?, —C(R?)2-N(R?)2, —C(R?)2-N(H)R?, —C(R?)2-S—R? and —C(R?)2-F, wherein each R? is or is part of a removable protecting group; each R? is independently a hydrogen atom, an alkyl, substituted alkyl, arylalkyl, alkenyl, alkynyl, aryl, heteroaryl, heterocyclic, acyl, cyano, alkoxy, aryloxy, heteroaryloxy or amido group, or a detectable label attached through a linking group; or (R?)2 represents an alkylidene group of formula ?C(R??)2 wherein each R?? may be the same or different and is selected from the group comprising hydrogen and halogen atoms and alkyl groups; and wherein said molecule may be reacted to yield an intermediate in which each R? is exchanged for H or, where Z is —C(R?)2-F, the F is ex
Type:
Grant
Filed:
March 8, 2013
Date of Patent:
September 1, 2015
Assignee:
Illumina Cambridge Limited
Inventors:
John Milton, Xiaolin Wu, Mark Smith, Joseph Brennan, Colin Barnes, Xiaohai Liu, Silke Ruediger