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1. 发明申请

WO2022099185A1 PLAQUE COUNTING ASSAY METHOD 审中-公开
公开(公告)号：WO2022099185A1
公开(公告)日：2022-05-12
申请号：PCT/US2021/058586
申请日：2021-11-09
申请人： THRIVE BIOSCIENCE, INC. , BLANCHARD, Alan , CHAPMAN, Kenneth
发明人： BLANCHARD, Alan , CHAPMAN, Kenneth
IPC分类号： G01N33/569 , G01N21/17 , C12N7/00 , G01N21/00 , G01N33/48
摘要： A plaque assay counting method, comprising the steps of: placing cells in wells of a plate, applying virions on the cells, thereafter imaging the virus infected cells at desired intervals without having to kill the still living cells and fixing same between the desired intervals resulting in a time sequence of images and using the time sequence of images to identify plaques for counting.

2. 发明申请

WO9841531A3 SOLVENT FOR BIOPOLYMER SYNTHESIS, SOLVENT MICRODROPLETS AND METHODS OF USE 审中-公开
标题翻译：溶剂用于生物聚合物合成，溶剂微球和使用方法
公开(公告)号：WO9841531A3
公开(公告)日：1999-09-16
申请号：PCT/US9805483
申请日：1998-03-20
申请人： UNIV WASHINGTON , BLANCHARD ALAN P
发明人： BLANCHARD ALAN P
IPC分类号： B41J2/16 , B01J19/00 , B41J2/01 , C07H19/00 , C07H21/00 , C07H21/02 , C07H21/04 , C07K1/02 , C07K1/04 , C07K14/00 , C12M1/00 , C12N15/09 , C40B40/06 , C40B50/14 , G01N33/53 , G01N33/566 , B41J3/00 , C07H1/08
CPC分类号： C07H21/00 , B01J19/0046 , B01J2219/00378 , B01J2219/00475 , B01J2219/00488 , B01J2219/00527 , B01J2219/00536 , B01J2219/00585 , B01J2219/0059 , B01J2219/00596 , B01J2219/00605 , B01J2219/0061 , B01J2219/00612 , B01J2219/00619 , B01J2219/00626 , B01J2219/00637 , B01J2219/00659 , B01J2219/00675 , B01J2219/00689 , B01J2219/00691 , B01J2219/00695 , B01J2219/00704 , B01J2219/00722 , B41J2/01 , B82Y30/00 , C07H19/00 , C07K1/02 , C07K1/04 , C40B40/06 , C40B50/14
摘要： The present invention provides a method of oligonucleotide synthesis. The method consists of coupling a first nucleotide to a second nucleotide in a high surface tension solvent. The invention also provides microdroplets of a solution comprising a solvent having a boiling point of 150 DEG C or above, a surface tension of 30 dynes/cm or above, and a viscosity of 0.015 g/(cm) (sec). Such microdroplets are useful for the synthesis of chemical species, particularly biopolymers such as oligonucleotides and peptides, as well as arrays of chemical species. Preferably, the solvent has formula (I), wherein A = O or S; X = O, S or N(C1-C4 alkyl); Y = O, S, N(C1-C4 alkyl) or CH2; and R = C1-C20 straight or branched chain alkyl.
摘要翻译：本发明提供寡核苷酸合成方法。该方法包括在高表面张力溶剂中偶联第一个核苷酸至第二个核苷酸。本发明还提供了包含沸点为150℃以上，表面张力为30达因/厘米或更高，粘度为0.015克/厘米2（sec）的溶剂的溶液的微滴。这样的微滴可用于合成化学物质，特别是生物聚合物如寡核苷酸和肽，以及化学物质的阵列。优选地，溶剂具有式（I），其中A = O或S; X = O，S或N（C 1 -C 4烷基）; Y = O，S，N（C 1 -C 4烷基）或CH 2; 和R = C 1 -C 20直链或支链烷基。

3. 发明申请

WO2011050340A1 SYSTEMS AND METHODS FOR ERROR CORRECTION IN DNA SEQUENCING 审中-公开
标题翻译： DNA序列中错误校正的系统和方法
公开(公告)号：WO2011050340A1
公开(公告)日：2011-04-28
申请号：PCT/US2010/053873
申请日：2010-10-22
申请人： LIFE TECHNOLOGIES CORPORATION , SIKORA, Marcin , BLANCHARD, Alan
发明人： SIKORA, Marcin , BLANCHARD, Alan
IPC分类号： C12Q1/68
CPC分类号： G06F19/20 , C12Q1/6869 , C12Q1/6874 , G06F19/10 , G06F19/22 , C12Q2565/102 , C12Q2521/501
摘要： Disclosed are systems and methods for polynucleotide sequencing where detection and correction of base calling errors can be achieved without reliance on a reference sequence. In certain embodiments, redundant information, which may be provided by additional labels, can be introduced during measurement so as to allow such detection of errors. Such redundant information and measurements can be facilitated by encoding of nucleotide sequence being measured. Various examples of such encoding, redundancy introduction, and decoding are provided.
摘要翻译：公开了用于多核苷酸测序的系统和方法，其中可以在不依赖参考序列的情况下实现基本呼叫错误的检测和校正。在某些实施例中，可以在测量期间引入可由附加标签提供的冗余信息，以允许这种错误的检测。可以通过编码被测量的核苷酸序列来促进这种冗余信息和测量。提供了这种编码，冗余引入和解码的各种示例。

4. 发明申请

WO2021173894A1 PRE-SCAN FOCUS AND SCAN FOCUS METHODS 审中-公开
公开(公告)号：WO2021173894A1
公开(公告)日：2021-09-02
申请号：PCT/US2021/019757
申请日：2021-02-26
申请人： THRIVE BIOSCIENCE, INC. , GOLDMAN, Jeff , BLANCHARD, Alan
发明人： GOLDMAN, Jeff , BLANCHARD, Alan
IPC分类号： G01F23/292 , G01N21/17 , G01N21/3577 , G02B21/00 , G02B21/24
摘要： A method for pre-scanning a transparent cell culture plate with a plurality of wells to improve focus using a plurality of z-axis images and a method for focusing an optical system on a transparent cell culture plate by performing a Fourier transform on image data at different focus distance steps to reveal a pattern and using the pattern at each step to determine the focus distance.

5. 发明申请

WO2017079682A1 AUTOMATED CELL CULTURE INCUBATORS COMPRISING SELECTIVELY PERMEABLE CELL CULTURE VESSEL STORAGE COMPARTMENTS 审中-公开
标题翻译：自动细胞培养孵化器，包括选择性渗透细胞培养容器储存室
公开(公告)号：WO2017079682A1
公开(公告)日：2017-05-11
申请号：PCT/US2016/060710
申请日：2016-11-04
申请人： THRIVE BIOSCIENCE, INC. , BLANCHARD, Alan
发明人： BLANCHARD, Alan
IPC分类号： B01D35/30 , B01D53/62 , B01L3/00 , C12M1/22 , C12N1/04
CPC分类号： C12M1/22 , C12M23/24 , C12M23/50 , C12M37/04 , C12M41/14 , C12M41/36
摘要： In some aspects, the invention relates to selectively permeable cell culture vessel storage containers and their methods of use. In some embodiments, the containers comprise a gas-permeable membrane that is selectively impermeable to water vapor.
摘要翻译：在一些方面，本发明涉及选择性渗透细胞培养容器储存容器及其使用方法。在一些实施方案中，容器包含选择性不透水蒸汽的透气膜。

6. 发明申请

WO2012061818A1 FLOWCELLS AND FLOWCELL REACTION CHAMBERS 审中-公开
标题翻译：流体和流动反应室
公开(公告)号：WO2012061818A1
公开(公告)日：2012-05-10
申请号：PCT/US2011/059607
申请日：2011-11-07
申请人： LIFE TECHNOLOGIES CORPORATION , BOEGE, Steven , BLANCHARD, Alan , BALL, James , FOSTER, Evan , BRIDGHAM, John
发明人： BOEGE, Steven , BLANCHARD, Alan , BALL, James , FOSTER, Evan , BRIDGHAM, John
IPC分类号： B01L3/00
CPC分类号： B01L3/502707 , B01L3/502761 , B01L7/52 , B01L2200/0652 , B01L2300/0861 , B01L2300/0877 , B01L2300/168 , B01L2400/086 , G01N21/05 , G01N2021/0346 , G01N2021/056
摘要： Flowcell designs that are suitable for large scale gene sequencing analyses are disclosed. Different layouts of flowcells are presented. Methods of functionalizing the surface where DNA samples are placed for enhanced attachment are discussed. Special treatments of the functionalized surface to achieve desired optical characteristics are also featured.
摘要翻译：公开了适用于大规模基因测序分析的流通池设计。提出了流通池的不同布局。讨论了放置DNA样品以增强附着物的表面官能化方法。还具有功能化表面的特殊处理以实现期望的光学特性。

7. 发明申请

WO2011106460A2 METHODS FOR FLIP-STRAND IMMOBILIZING AND SEQUENCING NUCLEIC ACIDS 审中-公开
标题翻译：用于螺旋状态固定和测序核酸的方法
公开(公告)号：WO2011106460A2
公开(公告)日：2011-09-01
申请号：PCT/US2011/025964
申请日：2011-02-23
申请人： LIFE TECHNOLOGIES CORPORATION , MCKERNAN, Kevin , BLANCHARD, Alan , ZON, Gerald , LAO, Kai , STRAUS, Neil , SPIER, Eugene , CHEN, Caifu
发明人： MCKERNAN, Kevin , BLANCHARD, Alan , ZON, Gerald , LAO, Kai , STRAUS, Neil , SPIER, Eugene , CHEN, Caifu
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6834 , C12Q1/6869 , C12Q2521/301 , C12Q2521/501 , C12Q2525/301 , C12Q2565/518 , C12Q2563/149 , C12Q2525/125 , C12Q2525/119 , C12Q2537/119 , C12Q2525/155
摘要： Provided herein are compositions, materials, methods and kits for immobilizing a template polynucleotide in a first orientation, and immobilizing a complementary sequence of the template polynucleotide in an orientation that is flipped compared to the orientation of the template polynucleotide. Provided herein are adaptive oligonucleotides that can be used in various nucleic acid manipulations to generate immobilized complement polynucleotides that are flipped in orientation compared to the orientation of the immobilized template polynucleotides.
摘要翻译：本文提供了用于将模板多核苷酸固定在第一取向中的组合物，材料，方法和试剂盒，并且与模板多核苷酸的取向相比，将模板多核苷酸的互补序列固定在翻转的取向中。本文提供的适应性寡核苷酸可用于各种核酸操作以产生与固定的模板多核苷酸的取向相比翻转的固定的补体多核苷酸。

8. 发明申请

WO2007121489A3 REAGENTS, METHODS, AND LIBRARIES FOR GEL-FREE BEAD-BASED SEQUENCING 审中-公开
标题翻译：用于无凝胶基序列测序的试剂，方法和图谱
公开(公告)号：WO2007121489A3
公开(公告)日：2008-09-12
申请号：PCT/US2007066931
申请日：2007-04-19
申请人： APPLERA CORP , MCKERNAN KEVIN , BLANCHARD ALAN , COSTA GINA
发明人： MCKERNAN KEVIN , BLANCHARD ALAN , COSTA GINA
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6837 , C12Q1/6869 , C12Q1/6874 , C12Q2535/10 , C12Q2565/501 , C12Q2533/107 , C12Q2531/137 , C12Q2537/1373
摘要： The present invention provides methods for determining a nucleic acid sequence by performing successive cycles of duplex extension along a single stranded template. The cycles comprise steps of extension, ligation, and, preferably, cleavage. In certain embodiments the methods make use of extension probes containing phosphorothiolate linkages and employ agents appropriate to cleave such linkages. In certain embodiments the methods make use of extension probes containing an abasic residue or a damaged base and employ agents appropriate to cleave linkages between a nucleoside and an abasic residue and/or agents appropriate to remove a damaged base from a nucleic acid. The invention provides methods of determining information about a sequence using at least two distinguishably labeled probe families. In certain embodiments the methods acquire less than 2 bits of information from each of a plurality of nucleotides in the template in each cycle. In certain embodiments the sequencing reactions are performed on templates attached to microparticles, which are immobilized in or on a semi-solid support or attached to a substrate. The invention further provides sets of labeled extension probes containing phosphorothiolate linkages or trigger residues that are suitable for use in the method. In addition, the invention includes performing multiple sequencing reactions on a single template by removing initializing oligonucleotides and extended strands and performing subsequent reactions using different initializing oligonucleotides. The invention further provides efficient methods for preparing templates, particularly for performing sequencing multiple different templates in parallel. The invention also provides methods for performing ligation and cleavage. The invention also provides new libraries of nucleic acid fragments containing paired tags, and methods of preparing microparticles having multiple different templates (e.g., containing paired tags) attached thereto and of sequencing the templates individually. The invention also provides automated sequencing systems, flow cells, image processing methods, and computer-readable media that store computer-executable instructions (e.g., to perform the image-processing methods) and/or sequence information. In certain embodiments the sequence information is stored in a database. The invention further provides blocking oligonucleotides and methods of use thereof to facilitate sequencing. Further provided are arrays comprising microparticles having templates attached thereto and attached to a substrate in the absence of a semi-solid medium and methods of sequencing the templates. The invention also provides arrays of nucleic acid colonies produced using microparticles to "imprint" templates on a semi-solid medium or substrate, and methods of sequencing thereof.
摘要翻译：本发明提供了通过沿着单链模板进行连续循环的双链延伸来确定核酸序列的方法。循环包括延伸，连接和优选切割的步骤。在某些实施方案中，所述方法利用含有硫代磷酸酯键的延伸探针，并使用适合切割这种连接的试剂。在某些实施方案中，所述方法利用含有无碱基残基或受损碱基的延伸探针，并使用适于切割核苷和脱碱基残基之间的连接的试剂和/或适于从核酸中除去受损碱基的试剂。本发明提供使用至少两个可区分标记的探针家族确定关于序列的信息的方法。在某些实施方案中，该方法在每个周期中从模板中的多个核苷酸中的每一个获取少于2位的信息。在某些实施方案中，测序反应在附着于微粒的模板上进行，所述模板固定在半固体支持物中或附着于基底上。本发明进一步提供了包含适合用于该方法的硫代磷酸酯键或触发性残基的标记的延伸探针的集合。此外，本发明包括通过除去初始化寡核苷酸和延伸的链并使用不同的初始化寡核苷酸进行后续反应，在单个模板上进行多个测序反应。本发明还提供了用于制备模板的有效方法，特别是用于并行地进行多个不同模板的排序。本发明还提供了进行连接和切割的方法。本发明还提供了含有配对标签的核酸片段的新文库，以及制备具有多个不同模板（例如，含有配对标签）的微粒和分别对模板进行测序的方法。本发明还提供自动排序系统，流动池，图像处理方法和存储计算机可执行指令（例如，执行图像处理方法）和/或序列信息的计算机可读介质。在某些实施例中，序列信息存储在数据库中。本发明还提供了阻断寡核苷酸及其使用方法以促进测序。还提供了包含具有连接到其上的模板并且在不存在半固体培养基的情况下附着于底物的微粒的阵列和对模板进行测序的方法。本发明还提供使用微粒在半固体培养基或底物上“印记”模板产生的核酸菌落阵列及其测序方法。

9. 发明申请

WO2023059764A1 METHOD AND APPARATUS FOR SEARCHING AND ANALYZING CELL IMAGES 审中-公开
公开(公告)号：WO2023059764A1
公开(公告)日：2023-04-13
申请号：PCT/US2022/045846
申请日：2022-10-06
申请人： THRIVE BIOSCIENCE, INC. , BLANCHARD, Alan
发明人： BLANCHARD, Alan
IPC分类号： G02B21/36 , G06T7/00
摘要： A method and apparatus for searching cell images comprising storing cell images in an image database, generating index data for the stored images in the image database, wherein the index data includes image metadata and data extracted from the stored image data by analysis including morphological descriptors, applications of algorithms, machine learning and/or data mining.

10. 发明申请

WO2023049504A1 METHOD AND APPARATUS FOR CALIBRATING AN IMAGING SYSTEM 审中-公开
公开(公告)号：WO2023049504A1
公开(公告)日：2023-03-30
申请号：PCT/US2022/044877
申请日：2022-09-27
申请人： THRIVE BIOSCIENCE, INC , BLANCHARD, Alan , LICO, Arthur , MOODY, Michael
发明人： BLANCHARD, Alan , LICO, Arthur , MOODY, Michael
IPC分类号： C12M1/34 , C12M1/00 , G01N33/50 , G02B21/36 , C12M1/32
摘要： A method and apparatus for calibrating an imaging system provides a program stored in the imaging system having a graphical user interface and providing a plurality of tools to align hardware components of the imaging system including cameras for imaging cell culture vessels received by the imaging system and having a tool for providing a video image output of a cell culture vessel received in the imaging system.

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