CA3004310A1 - Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells - Google Patents
Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells Download PDFInfo
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- CA3004310A1 CA3004310A1 CA3004310A CA3004310A CA3004310A1 CA 3004310 A1 CA3004310 A1 CA 3004310A1 CA 3004310 A CA3004310 A CA 3004310A CA 3004310 A CA3004310 A CA 3004310A CA 3004310 A1 CA3004310 A1 CA 3004310A1
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- nucleic acid
- barcode
- sequence
- barcodes
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- C12N15/1065—Preparation or screening of tagged libraries, e.g. tagged microorganisms by STM-mutagenesis, tagged polynucleotides, gene tags
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Families Citing this family (112)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US11111543B2 (en) | 2005-07-29 | 2021-09-07 | Natera, Inc. | System and method for cleaning noisy genetic data and determining chromosome copy number |
| US8835358B2 (en) | 2009-12-15 | 2014-09-16 | Cellular Research, Inc. | Digital counting of individual molecules by stochastic attachment of diverse labels |
| US12152275B2 (en) | 2010-05-18 | 2024-11-26 | Natera, Inc. | Methods for non-invasive prenatal ploidy calling |
| US11939634B2 (en) | 2010-05-18 | 2024-03-26 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US12221653B2 (en) | 2010-05-18 | 2025-02-11 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US20190010543A1 (en) | 2010-05-18 | 2019-01-10 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US9677118B2 (en) | 2014-04-21 | 2017-06-13 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US10316362B2 (en) | 2010-05-18 | 2019-06-11 | Natera, Inc. | Methods for simultaneous amplification of target loci |
| US11322224B2 (en) | 2010-05-18 | 2022-05-03 | Natera, Inc. | Methods for non-invasive prenatal ploidy calling |
| US10179937B2 (en) | 2014-04-21 | 2019-01-15 | Natera, Inc. | Detecting mutations and ploidy in chromosomal segments |
| JP6153874B2 (ja) | 2011-02-09 | 2017-06-28 | ナテラ， インコーポレイテッド | 非侵襲的出生前倍数性呼び出しのための方法 |
| US11435358B2 (en) | 2011-06-23 | 2022-09-06 | Board Of Regents, The University Of Texas System | Single molecule peptide sequencing |
| ES2904816T3 (es) | 2012-02-27 | 2022-04-06 | Becton Dickinson Co | Composiciones para recuento molecular |
| US10323279B2 (en) | 2012-08-14 | 2019-06-18 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US10584381B2 (en) | 2012-08-14 | 2020-03-10 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| CA2881685C (en) | 2012-08-14 | 2023-12-05 | 10X Genomics, Inc. | Microcapsule compositions and methods |
| US10752949B2 (en) | 2012-08-14 | 2020-08-25 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US9701998B2 (en) | 2012-12-14 | 2017-07-11 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US9951386B2 (en) | 2014-06-26 | 2018-04-24 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| US11591637B2 (en) | 2012-08-14 | 2023-02-28 | 10X Genomics, Inc. | Compositions and methods for sample processing |
| US20140100126A1 (en) | 2012-08-17 | 2014-04-10 | Natera, Inc. | Method for Non-Invasive Prenatal Testing Using Parental Mosaicism Data |
| WO2014078855A1 (en) | 2012-11-19 | 2014-05-22 | Apton Biosystems, Inc. | Digital analysis of molecular analytes using single molecule detection |
| US10378053B2 (en) | 2017-03-17 | 2019-08-13 | Apton Biosystems, Inc. | Sequencing and high resolution imaging |
| US10829816B2 (en) | 2012-11-19 | 2020-11-10 | Apton Biosystems, Inc. | Methods of analyte detection |
| WO2014093676A1 (en) | 2012-12-14 | 2014-06-19 | 10X Technologies, Inc. | Methods and systems for processing polynucleotides |
| US10533221B2 (en) | 2012-12-14 | 2020-01-14 | 10X Genomics, Inc. | Methods and systems for processing polynucleotides |
| EP3862435A1 (en) | 2013-02-08 | 2021-08-11 | 10X Genomics, Inc. | Polynucleotide barcode generation |
| ES2711168T3 (es) | 2013-08-28 | 2019-04-30 | Becton Dickinson Co | Análisis masivo en paralelo de células individuales |
| US9694361B2 (en) | 2014-04-10 | 2017-07-04 | 10X Genomics, Inc. | Fluidic devices, systems, and methods for encapsulating and partitioning reagents, and applications of same |
| US20180173846A1 (en) | 2014-06-05 | 2018-06-21 | Natera, Inc. | Systems and Methods for Detection of Aneuploidy |
| KR102425438B1 (ko) | 2014-06-23 | 2022-07-27 | 더 제너럴 하스피탈 코포레이션 | 서열결정에 의해 평가된 DSB의 게놈 전체에 걸친 비편향된 확인 (GUIDE-Seq) |
| CA2953469A1 (en) | 2014-06-26 | 2015-12-30 | 10X Genomics, Inc. | Analysis of nucleic acid sequences |
| US12312640B2 (en) | 2014-06-26 | 2025-05-27 | 10X Genomics, Inc. | Analysis of nucleic acid sequences |
| AU2015279548B2 (en) | 2014-06-26 | 2020-02-27 | 10X Genomics, Inc. | Methods of analyzing nucleic acids from individual cells or cell populations |
| SG11201705615UA (en) | 2015-01-12 | 2017-08-30 | 10X Genomics Inc | Processes and systems for preparing nucleic acid sequencing libraries and libraries prepared using same |
| EP3262407B1 (en) | 2015-02-24 | 2023-08-30 | 10X Genomics, Inc. | Partition processing methods and systems |
| ES2836802T3 (es) | 2015-02-27 | 2021-06-28 | Becton Dickinson Co | Códigos de barras moleculares espacialmente direccionables |
| US11535882B2 (en) | 2015-03-30 | 2022-12-27 | Becton, Dickinson And Company | Methods and compositions for combinatorial barcoding |
| US11390914B2 (en) | 2015-04-23 | 2022-07-19 | Becton, Dickinson And Company | Methods and compositions for whole transcriptome amplification |
| WO2016183106A1 (en) | 2015-05-11 | 2016-11-17 | Natera, Inc. | Methods and compositions for determining ploidy |
| ES2745694T3 (es) | 2015-09-11 | 2020-03-03 | Cellular Res Inc | Métodos y composiciones para normalización de biblioteca de ácido nucleico |
| EP3347467B1 (en) | 2015-09-11 | 2021-06-23 | The General Hospital Corporation | Full interrogation of nuclease dsbs and sequencing (find-seq) |
| CN109477138A (zh) | 2016-04-15 | 2019-03-15 | 纳特拉公司 | 肺癌检测方法 |
| US10301677B2 (en) | 2016-05-25 | 2019-05-28 | Cellular Research, Inc. | Normalization of nucleic acid libraries |
| US10202641B2 (en) | 2016-05-31 | 2019-02-12 | Cellular Research, Inc. | Error correction in amplification of samples |
| US10640763B2 (en) | 2016-05-31 | 2020-05-05 | Cellular Research, Inc. | Molecular indexing of internal sequences |
| WO2018058073A2 (en) | 2016-09-26 | 2018-03-29 | Cellular Research, Inc. | Measurement of protein expression using reagents with barcoded oligonucleotide sequences |
| GB201618485D0 (en) | 2016-11-02 | 2016-12-14 | Ucl Business Plc | Method of detecting tumour recurrence |
| US10011870B2 (en) | 2016-12-07 | 2018-07-03 | Natera, Inc. | Compositions and methods for identifying nucleic acid molecules |
| EP3545089B1 (en) | 2017-01-30 | 2022-03-09 | 10X Genomics, Inc. | Methods and systems for droplet-based single cell barcoding |
| WO2018144240A1 (en) | 2017-02-01 | 2018-08-09 | Cellular Research, Inc. | Selective amplification using blocking oligonucleotides |
| CN111356795B (zh) * | 2017-05-23 | 2024-04-26 | 哈佛学院董事及会员团体 | 核酸的多重末端标记扩增 |
| US10400235B2 (en) | 2017-05-26 | 2019-09-03 | 10X Genomics, Inc. | Single cell analysis of transposase accessible chromatin |
| CN116064732A (zh) | 2017-05-26 | 2023-05-05 | 10X基因组学有限公司 | 转座酶可接近性染色质的单细胞分析 |
| EP3635135A1 (en) | 2017-06-05 | 2020-04-15 | Becton, Dickinson and Company | Sample indexing for single cells |
| WO2019040650A1 (en) | 2017-08-23 | 2019-02-28 | The General Hospital Corporation | GENETICALLY MODIFIED CRISPR-CAS9 NUCLEASES HAVING MODIFIED PAM SPECIFICITY |
| WO2019055852A1 (en) * | 2017-09-15 | 2019-03-21 | Apton Biosystems, Inc. | PROFILING OF HETEROGENEOUS UNICELLULAR ORGANISMS USING MOLECULAR BARCODE CODING |
| US11725228B2 (en) | 2017-10-11 | 2023-08-15 | The General Hospital Corporation | Methods for detecting site-specific and spurious genomic deamination induced by base editing technologies |
| ES2966831T3 (es) * | 2017-11-06 | 2024-04-24 | Illumina Inc | Técnicas de indexación de ácidos nucleicos |
| SG11201913654QA (en) | 2017-11-15 | 2020-01-30 | 10X Genomics Inc | Functionalized gel beads |
| DK3559272T3 (da) * | 2017-11-17 | 2022-10-10 | 10X Genomics Inc | Fremgangsmåder og systemer til at forbinde fysiske og genetiske egenskaber ved biologiske partikler |
| US10829815B2 (en) | 2017-11-17 | 2020-11-10 | 10X Genomics, Inc. | Methods and systems for associating physical and genetic properties of biological particles |
| WO2019118926A1 (en) | 2017-12-14 | 2019-06-20 | Tai Diagnostics, Inc. | Assessing graft suitability for transplantation |
| US11946095B2 (en) | 2017-12-19 | 2024-04-02 | Becton, Dickinson And Company | Particles associated with oligonucleotides |
| WO2019152395A1 (en) | 2018-01-31 | 2019-08-08 | Bio-Rad Laboratories, Inc. | Methods and compositions for deconvoluting partition barcodes |
| US12398389B2 (en) | 2018-02-15 | 2025-08-26 | Natera, Inc. | Methods for isolating nucleic acids with size selection |
| WO2019191321A1 (en) * | 2018-03-28 | 2019-10-03 | 10X Genomics, Inc. | Nucleic acid enrichment within partitions |
| EP3775271B1 (en) | 2018-04-06 | 2025-03-12 | 10X Genomics, Inc. | Systems and methods for quality control in single cell processing |
| US11466313B2 (en) | 2018-04-13 | 2022-10-11 | The Board Of Trustees Of The Leland Stanford Junior University | Nucleic acid quantification using concentration-specific barcodes |
| US12024738B2 (en) | 2018-04-14 | 2024-07-02 | Natera, Inc. | Methods for cancer detection and monitoring |
| US11898203B2 (en) | 2018-04-17 | 2024-02-13 | The General Hospital Corporation | Highly sensitive in vitro assays to define substrate preferences and sites of nucleic-acid binding, modifying, and cleaving agents |
| WO2019213237A1 (en) | 2018-05-03 | 2019-11-07 | Becton, Dickinson And Company | Molecular barcoding on opposite transcript ends |
| EP4234717A3 (en) | 2018-05-03 | 2023-11-01 | Becton, Dickinson and Company | High throughput multiomics sample analysis |
| US12234509B2 (en) | 2018-07-03 | 2025-02-25 | Natera, Inc. | Methods for detection of donor-derived cell-free DNA |
| JP2021531750A (ja) * | 2018-07-12 | 2021-11-25 | ボード オブ リージェンツ, ザ ユニバーシティ オブ テキサス システムBoard Of Regents, The University Of Texas System | オリゴヌクレオチドによる分子近傍検出 |
| EP3837545A1 (en) | 2018-08-17 | 2021-06-23 | F. Hoffmann-La Roche AG | In vitro transcytosis assay |
| EP3844299A1 (en) * | 2018-08-28 | 2021-07-07 | Becton Dickinson and Company | Sample multiplexing using carbohydrate-binding and membrane-permeable reagents |
| KR20210047364A (ko) | 2018-09-19 | 2021-04-29 | 앱톤 바이오시스템즈, 인코포레이티드 | 밀집 패킹된 분석물층 및 검출 방법 |
| US20220034881A1 (en) * | 2018-09-24 | 2022-02-03 | Bristol-Myers Squibb Company | Barcoded peptide-mhc complexes and uses thereof |
| JP7670607B2 (ja) * | 2018-10-01 | 2025-04-30 | ベクトン・ディキンソン・アンド・カンパニー | ５’転写物配列の決定 |
| WO2020072907A1 (en) | 2018-10-05 | 2020-04-09 | Board Of Regents, The University Of Texas System | Solid-phase n-terminal peptide capture and release |
| WO2020077274A1 (en) | 2018-10-11 | 2020-04-16 | Berkeley Lights, Inc. | Systems and methods for identification of optimized protein production and kits therefor |
| EP3877520B1 (en) | 2018-11-08 | 2025-03-19 | Becton, Dickson And Company | Whole transcriptome analysis of single cells using random priming |
| EP3894552A1 (en) | 2018-12-13 | 2021-10-20 | Becton, Dickinson and Company | Selective extension in single cell whole transcriptome analysis |
| CA3123940A1 (en) * | 2019-01-07 | 2020-07-16 | Pivot Bio, Inc. | Plant colonization assays using natural microbial barcodes |
| ES2945227T3 (es) | 2019-01-23 | 2023-06-29 | Becton Dickinson Co | Oligonucleótidos asociados con anticuerpos |
| MX2021009482A (es) * | 2019-02-11 | 2021-11-12 | Ultima Genomics Inc | Metodos para el analisis de acidos nucleicos. |
| CN120099139A (zh) | 2019-02-14 | 2025-06-06 | 贝克顿迪金森公司 | 杂合体靶向和全转录物组扩增 |
| WO2020185791A1 (en) | 2019-03-11 | 2020-09-17 | 10X Genomics, Inc. | Systems and methods for processing optically tagged beads |
| US11965208B2 (en) | 2019-04-19 | 2024-04-23 | Becton, Dickinson And Company | Methods of associating phenotypical data and single cell sequencing data |
| US20200385791A1 (en) * | 2019-06-07 | 2020-12-10 | Bio-Rad Laboratories, Inc. | Multiple Beads Per Droplet Resolution |
| US11939622B2 (en) | 2019-07-22 | 2024-03-26 | Becton, Dickinson And Company | Single cell chromatin immunoprecipitation sequencing assay |
| JP7522189B2 (ja) | 2019-11-08 | 2024-07-24 | ベクトン・ディキンソン・アンド・カンパニー | 免疫レパートリーシーケンシングのための完全長ｖ（ｄ）ｊ情報を得るためのランダムプライミングの使用 |
| WO2021128036A1 (zh) * | 2019-12-25 | 2021-07-01 | 苏州绘真生物科技有限公司 | 用于构建人单细胞tcr测序文库的试剂盒及其应用 |
| CN115244184A (zh) | 2020-01-13 | 2022-10-25 | 贝克顿迪金森公司 | 用于定量蛋白和rna的方法和组合物 |
| AU2021207454A1 (en) * | 2020-01-13 | 2022-08-11 | Fluent Biosciences Inc. | Reverse transcription during template emulsification |
| US12188010B2 (en) | 2020-01-29 | 2025-01-07 | Becton, Dickinson And Company | Barcoded wells for spatial mapping of single cells through sequencing |
| WO2021168015A1 (en) * | 2020-02-17 | 2021-08-26 | Universal Sequencing Technology Corporation | Methods of barcoding nucleic acid for detection and sequencing |
| EP4111168A1 (en) | 2020-02-25 | 2023-01-04 | Becton Dickinson and Company | Bi-specific probes to enable the use of single-cell samples as single color compensation control |
| US11661625B2 (en) | 2020-05-14 | 2023-05-30 | Becton, Dickinson And Company | Primers for immune repertoire profiling |
| CA3185619A1 (en) * | 2020-05-29 | 2021-12-02 | Riken | Method for treating cell population and method for analyzing genes included in cell population |
| CN115803445A (zh) | 2020-06-02 | 2023-03-14 | 贝克顿迪金森公司 | 用于5撇基因表达测定的寡核苷酸和珠 |
| US11932901B2 (en) | 2020-07-13 | 2024-03-19 | Becton, Dickinson And Company | Target enrichment using nucleic acid probes for scRNAseq |
| WO2022026909A1 (en) | 2020-07-31 | 2022-02-03 | Becton, Dickinson And Company | Single cell assay for transposase-accessible chromatin |
| WO2022109343A1 (en) | 2020-11-20 | 2022-05-27 | Becton, Dickinson And Company | Profiling of highly expressed and lowly expressed proteins |
| EP4263859A1 (en) | 2020-12-15 | 2023-10-25 | Becton, Dickinson and Company | Single cell secretome analysis |
| EP4323541A1 (en) * | 2021-04-13 | 2024-02-21 | Elegen Corporation | Methods and compositions for cell-free cloning |
| US20240393342A1 (en) * | 2021-09-27 | 2024-11-28 | The University Of Tokyo | Cell labeling molecule and method for analyzing cell |
| GB202204903D0 (en) * | 2022-04-04 | 2022-05-18 | Univ Oxford Innovation Ltd | chimeric artefact detectioin method |
| GB202211182D0 (en) * | 2022-08-01 | 2022-09-14 | Univ Oxford Innovation Ltd | Bead-hashing |
| US20240052419A1 (en) * | 2022-08-10 | 2024-02-15 | Guardant Health, Inc. | Methods and systems for detecting genetic variants |
| WO2025166174A1 (en) * | 2024-02-01 | 2025-08-07 | Bio-Rad Laboratories, Inc. | Methods and compositions for bead deconvolution |
Family Cites Families (39)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| US5643722A (en) | 1994-05-11 | 1997-07-01 | Trustees Of Boston University | Methods for the detection and isolation of proteins |
| US5962271A (en) | 1996-01-03 | 1999-10-05 | Cloutech Laboratories, Inc. | Methods and compositions for generating full-length cDNA having arbitrary nucleotide sequence at the 3'-end |
| DE60214604T2 (de) | 2001-02-23 | 2006-12-28 | Japan Science And Technology Agency, Kawaguchi | Vorrichtung und Verfahren zum Herstellen von Mikrokapseln |
| US20030175749A1 (en) | 2001-12-08 | 2003-09-18 | Jong-Yoon Chun | Annealing control primer and its uses |
| CN100431679C (zh) | 2004-03-23 | 2008-11-12 | 独立行政法人科学技术振兴机构 | 微小液滴的生成方法及装置 |
| EP1924704B1 (en) | 2005-08-02 | 2011-05-25 | Rubicon Genomics, Inc. | Compositions and methods for processing and amplification of dna, including using multiple enzymes in a single reaction |
| AU2008265691B2 (en) * | 2007-06-19 | 2014-04-24 | F. Hoffmann-La Roche Ag | High throughput nucleic acid sequencing by expansion |
| WO2009154303A2 (en) | 2008-06-18 | 2009-12-23 | Riken | A method of manufacturing a mixture of amplified double-stranded nucleic acids comprising unknown sequence |
| US20120010091A1 (en) | 2009-03-30 | 2012-01-12 | Illumina, Inc. | Gene expression analysis in single cells |
| EP2414547B1 (en) * | 2009-04-02 | 2014-03-12 | Fluidigm Corporation | Multi-primer amplification method for barcoding of target nucleic acids |
| CN101864477A (zh) * | 2009-04-15 | 2010-10-20 | 上海聚类生物科技有限公司 | 一种利用高通量测序单通道复用技术进行microRNA表达谱测定的方法 |
| FI3425062T3 (fi) | 2010-06-09 | 2023-09-01 | Keygene Nv | Kombinatorisia sekvenssiviivakoodeja suuren suorituskyvyn seulontaa varten |
| EP2625320B1 (en) * | 2010-10-08 | 2019-03-27 | President and Fellows of Harvard College | High-throughput single cell barcoding |
| WO2012083225A2 (en) | 2010-12-16 | 2012-06-21 | Gigagen, Inc. | System and methods for massively parallel analysis of nycleic acids in single cells |
| KR102033659B1 (ko) * | 2011-04-28 | 2019-10-31 | 더 보드 어브 트러스티스 어브 더 리랜드 스탠포드 주니어 유니버시티 | 샘플과 연관된 폴리뉴클레오티드의 식별 |
| EP2710172B1 (en) * | 2011-05-20 | 2017-03-29 | Fluidigm Corporation | Nucleic acid encoding reactions |
| AU2012354062B2 (en) * | 2011-12-16 | 2017-09-07 | Targetgene Biotechnologies Ltd | Compositions and methods for modifying a predetermined target nucleic acid sequence |
| WO2013116771A1 (en) * | 2012-02-01 | 2013-08-08 | Synthetic Genomics, Inc. | Materials and methods for the synthesis of error-minimized nucleic acid molecules |
| JP2015512655A (ja) * | 2012-04-13 | 2015-04-30 | シーケンタ インコーポレイテッド | 免疫レパートリ分析におけるサンプル混入の検出および定量化 |
| AU2013293240A1 (en) * | 2012-07-24 | 2015-03-05 | Adaptive Biotechnologies Corp. | Single cell analysis using sequence tags |
| WO2014066179A1 (en) | 2012-10-24 | 2014-05-01 | Clontech Laboratories, Inc. | Template switch-based methods for producing a product nucleic acid |
| JP6454281B2 (ja) * | 2012-11-05 | 2019-01-16 | タカラ バイオ ユーエスエー， インコーポレイテッド | バーコード化する核酸 |
| SG10201707394PA (en) * | 2013-03-15 | 2017-10-30 | Adaptive Biotechnologies Corp | Uniquely tagged rearranged adaptive immune receptor genes in a complex gene set |
| US10119134B2 (en) * | 2013-03-15 | 2018-11-06 | Abvitro Llc | Single cell bar-coding for antibody discovery |
| WO2014201273A1 (en) * | 2013-06-12 | 2014-12-18 | The Broad Institute, Inc. | High-throughput rna-seq |
| EP3467160A1 (en) * | 2013-06-27 | 2019-04-10 | 10X Genomics, Inc. | Compositions and methods for sample processing |
| US9708657B2 (en) * | 2013-07-01 | 2017-07-18 | Adaptive Biotechnologies Corp. | Method for generating clonotype profiles using sequence tags |
| CN115558661A (zh) | 2013-08-23 | 2023-01-03 | 路德维格癌症研究院 | 用于使用模板转换反应进行cDNA合成和单细胞转录组概况分析的方法和组合物 |
| ES2711168T3 (es) * | 2013-08-28 | 2019-04-30 | Becton Dickinson Co | Análisis masivo en paralelo de células individuales |
| WO2015057319A1 (en) | 2013-10-17 | 2015-04-23 | Clontech Laboratories, Inc. | Methods for adding adapters to nucleic acids and compositions for practicing the same |
| WO2015094861A1 (en) | 2013-12-17 | 2015-06-25 | Clontech Laboratories, Inc. | Methods for adding adapters to nucleic acids and compositions for practicing the same |
| AU2014373757B2 (en) * | 2013-12-30 | 2019-12-12 | Atreca, Inc. | Analysis of nucleic acids associated with single cells using nucleic acid barcodes |
| LT3134536T (lt) | 2014-04-21 | 2020-05-11 | President And Fellows Of Harvard College | Sistemos ir būdai, skirti nukleorūgščių brūkšniniam kodavimui |
| US10988795B2 (en) | 2014-05-14 | 2021-04-27 | Ruprecht-Karls-Universitat Heidelberg | Synthesis of double-stranded nucleic acids |
| AU2015279548B2 (en) * | 2014-06-26 | 2020-02-27 | 10X Genomics, Inc. | Methods of analyzing nucleic acids from individual cells or cell populations |
| KR102541849B1 (ko) | 2014-09-15 | 2023-06-09 | 에이비비트로, 엘엘씨 | 고-처리량 뉴클레오티드 라이브러리 서열결정 |
| EP3262214B1 (en) | 2015-02-27 | 2023-10-25 | Standard BioTools Inc. | Microfluidic device |
| US11535882B2 (en) * | 2015-03-30 | 2022-12-27 | Becton, Dickinson And Company | Methods and compositions for combinatorial barcoding |
| US11390914B2 (en) * | 2015-04-23 | 2022-07-19 | Becton, Dickinson And Company | Methods and compositions for whole transcriptome amplification |
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