[1] 刘威.人类基因组计划大事件[J]. 生物化学与生物物理进展, 2001, 28(002):135-136. LIU W. Human genome project[J]. Adv Biochem Biophys, 2001, 28(002):135-136. [2] SHAHEENUZZAMN M D, LIU T X, SHI S D, et al. Development of sequencing technology and role of next generation sequencing technology in wheat research: a review[J]. Pak J Bot, 2020,52(5): 1867-1878. [3] SANGER F. Sequences, sequences, and sequences[J]. Annu Rev Biochem, 1988, 57(1): 1-28. [4] METZKER M L. Applications of next-generation sequencing technologies-the next generation[J]. Nat Rev Genet, 2010, 11(1): 31-46. [5] LAISSUE P ,VAIMAN D. Exploring the molecular aetiology of preeclampsia by massive parallel sequencing of DNA[J]. Curr Hypertens Rep, 2020, 22(4): 1-10. [6] GOODWIN S, MCPHERSON J D, MCCOMBIE W R. Coming of age: ten years of next-generation sequencing technologies[J]. Nat Rew Genet, 2016, 17(6): 333-351. [7] NGUYEN H T, TRAN D H, NGO Q D, et al. Evaluation of a liquid biopsy protocol using ultra-deep massive parallel sequencing for detecting and quantifying circulation tumor DNA in colorectal cancer patients[J]. Cancer Invest, 2020, 38(2): 85-93. [8] ZHANG H Y, LIU R J, YAN C, et al. Advantage of next-generation sequencing in dynamic monitoring of circulating tumor DNA over droplet digital PCR in cetuximab treated colorectal cancer patients[J]. Trasl Oncol, 2019, 12(3): 426-431. [9] 陈竺,黄薇,傅刚,等.人类基因组计划现状与展望[J].自然杂志, 2000, 22(3): 125-133. CHEN Z,HUANG W,FU G, et al. Current situation and prospects of the human genome project[J]. Chinese J Nat, 2000, 22(3): 125-133. [10] STARK R, GRZELAK M, GENETICS J. RNA sequencing: the teenage years[J]. Nat Rew Genet, 2019, 20(11): 631-656. [11] QIN D H. Next-generation sequencing and its clinical application[J].Cancer Biol Med, 2019, 16(1): 4-10. [12] TRAPNELL C, ROBERTS A, GOFF L, et al. Differential gene and transcript expression analysis of RNA-seq experiments with tophat and cufflinks[J]. Nat Protoc, 2012, 7(3): 562-578. [13] 田李,张颖,赵云峰. 新一代测序技术的发展和应用[J]. 生物技术通报,2015:31(11): 1-8. TIAN L, ZHANG Y, ZHAO Y F. Development and application of new generation sequencing technology[J]. Biotech Bull, 2015, 31(11): 1-8. [14] KNIERIM E, LUCKE B, SCHWARZ J M, et al. Systematic comparison of three methods for fragmentation of long-range PCR products for next generation sequencing[J]. Plos Ones, 2011, 6(11):1-6. [15] 孙子奎,王峰,丁方美,等. 一种采用一步法进行DNA末端修复/加dA的方法及应用:中国,201610040334.O[P]. 2016-05-11. SUN Z K,WANG F,DING F M,et al. A one-step approach and application to DNA terminal repair/additon of dA:CN, 201610040334.O[P]. 2016-05-11. [16] 冯延叶,柴智,张会,等.稳定性增加的测序文库接头:中国,111139533.A[P].2020-05-12. FENG Y Y,CHAI Z,ZHANG H,et al. Increased stability of the sequencing library adaptor:CN 111139533.A[P]. 2020-05-12. [17] ZHENG J,SHI C,SHEN D. Compositions and methods for preparing sequencing libraries:US,20160349152.[P]. 2016-12-01. [18] MARINE R, POLSON S W, RAVEL J,et al. Evaluation of a transposase protocol for rapid generation of shotgun high-throughput sequencing libraries from nanogram quantities of DNA[J]. Appl Environ Microbiol, 2011, 77(22): 8071-8079. [19] KIA A, GLOECKNER C, OSOTHPRAROP T, et al. Improved genome sequencing using an engineered transposase[J]. BMC Biotechnol, 2017, 17(6): 1-10. [20] JOUALI F, MARCHOUDI N, ANSARI F Z, et al. SARS-CoV-2 genome sequence from Morocco, obtained using ion AmpliSeq technology[J]. Microbiol Resour Announ, 2020, 9(31): 1-3. [21] 崔凯,吴伟伟,刁其玉. 转录组测序技术的研究和应用进展[J]. 生物技术通报,2019,35(7): 1-9. CUI K, WU W W, DIAO Q Y. Application and research progress on transcriptomics[J]. Biotech Bull, 2019, 35(7): 1-9. [22] HAN Y X, GAO S G, MUEGGE K, et al. Advanced applications of RNA sequencing and challenges[J]. Bioinf Biol Insights, 2015, 9(S1): 29-46. [23] PISANO M P, TABONE O, BODINIER M, et al.RNA-seq transcriptome analysis reveals LTR-retrotransposons modulation in human perpheral blood monouclear cells(PBMCs) after in vivo lipopolysaccharides(LPS) injection[J]. J Virol, 2020: 94(19):1-25. [24] HRDLICKOVA R, TOLOUE M,TIAN B. RNA-seq methods for transcriptome analysis[J]. WIRES RNA, 2017, 8(1): 1-24. [25] HERBERT Z T, KERSHNER J P, BUTTY V L, et al. Cross-site comparison of ribosomal depletion kits for illumina RNAseq library construction[J]. BMC Genomics, 2018, 19(199): 1-10. [26] BUSH S J, MCCULLOCH M E B, SUMMERS K M, et al. Integration of quantitated expression estimates from polyA-selected and rRNA-depleted RNA-seq libraries[J]. BMC Bioinf, 2017, 18(18): 301-315. [27] CULVINER P H, GUEGLER C K, LAUB M T. A Simple, Cost-effective, and robust method for rRNA depletion in RNA-sequencing studies[J]. mBio, 2020, 11(2): 10-20. [28] ZHULIDOW P A, BOGDANOVA E A, SHCHEGLOV A S, et al. Simple cDNA normalization using kamchatka crab duplex-specific nuclease[J]. Nucl Acids Res, 2004, 32 (3): 1-8. [29] SHRMA C M, HAFFMANN S, DARFEUILLE F, et al. The primary transcriptome of the major human pathogen helicobacter pylori[J]. Nature, 2010, 464(11): 250-255. [30] DRUSIN S I,RASIA R M, ORENO D M. Study of the role of Mg2+ in dsRNA processing mechanism by bacterial RNAse III through QM/MM simulations[J]. J Biol Inorg Chem, 2020, 25(1): 89-98. [31] HEAD S R, KOMORI H K, LAMERE S A, et al. Library construction for next-generation sequencing: overviews and challenges[J]. Biotechniques, 2014, 56(2): 61-64. [32] KURN N, CHEN P C,HEATH J D, et al. Novel isothermal, linear nucleic acid amplification systems for highly multiplexed applications[J]. Clin Chem, 2005, 51(10): 1973-1981. [33] SARANTOPOULOU D, TANG S Y, RICCIOTTI E, et al. Comparative evaluation of RNA-Seq library preparation methods for strand-specifcity and low input[J]. Sci Rep, 2019, 9(7091): 1-10. [34] LEVIN J Z, YASSOUR M, ADICONIS X A, et al. Comprehensive comparative analysis of strand-specific RNA sequencing methods[J]. Nat Meth, 2010, 7(9): 709-715. [35] PARKHOMCHUK D, BORODINA T, AMSTISLAVSKIY V, et al. Transcriptome analysis by strand-specific sequencing of complementary DNA[J]. Nucl Acids Res, 2009, 37(18): 1-10. [36] MAGNOLIA B, NATHALIE B, ALISA L, et al. Strand-specific transcriptome sequencing using SMART technology[J]. Curr Protoc Mol Biol, 2016, 116(1): 1-18. [37] HAFNER M, LANDFRAF P, LUDWIG J, et al. Identification of microRNAs and other small regulatory RNAs using cDNA library sequencing[J]. Methods, 2008, 44(1): 3-12. [38] VIOLLET S, FUCHS R T, MUNAFO D B, et al. T4 RNA ligase 2 truncated active site mutants: improved tools for RNA analysis[J]. BMC Biotech, 2011, 11(72): 1-14:. [39] 马丽娜,杨进波,丁逸菲,等. 三代测序技术及其应用研究进展[J].中国畜牧兽医,2019,46(8):2245-2256. MAN L N, YANG J B, DING Y F, et al. Research progress on three generation sequencing technology and its application[J]. China Anim Husb Vet Med, 2019,46(8): 2245-2256. [40] 许亚昆,马越,胡小茜,等. 基于三代测序技术的微生物组学研究进展[J].生物多样性,2019,27(5): 534-542. XU Y K, MA Y, HU X X, et al. Analysis of prospective microbiology research using third-generation sequencing technology[J]. Biodivers Sci, 2019, 27(5): 534-542. [41] ARDUI S, ADAM A, VERMEESCH J R, et al. Single molecule real-time(SMRT) sequencing comes of age: application and utilities for medical diagnostics[J]. Nucl Acids Res, 2018, 46(5): 2159-2168. [42] JAIN M,OLSEN H E , PATEN B, et al. The oxford nanopore minion: delivery of nanopore sequencing to the genomics community[J]. Genome Biol, 2016, 17(239): 1-12. [43] LEVENE M J, KORLACH J,TURNER S W, et al. Zero-mode waveguides for single-molecule analysis at high concentrations[J]. Science, 2003, 299(5607): 682-686. [44] TRAVERS K J, CHINE C S, RANK D R, et al. A flexible and efficient template format for circular consensus sequencing and SNP detection[J]. Nucl Acids Res, 2010, 38(15): 1-8. [45] WANG S Y, ZHAO Z Y, HAQUE F Z, et al. Engineering of protein nanopores for sequencing, chemical or protein sensing and disease diagnosis[J]. Curr Opin Biotechnol, 2018, 51: 80-89. [46] 耿佳, 郭培宣. 噬菌体phi29 DNA包装马达磷脂嵌合体在单分子检测及纳米医学领域的应用[J]. 生命科学, 2011, 23(11): 1114-1129. GENG J, GUO P X. Membrane-embedded channel of bacteriophage phi29 DNA-packaging motor for single molecule sensing and nanomedicine[J].Chin Bull Life Sci, 2011,23(11): 1114-1129. [47] 文路, 汤富酬. 单细胞转录组分析研究进展[J]. 生命科学, 2014, 26(3): 228-233. WEN L, TANG F C. Recent progresses in single-cell transcriptome analysis[J]. Chinese Bull Life Sci, 2014, 26(3): 228-233. [48] 赵丽娜,赵晓航.循环肿瘤细胞单细胞测序—液体活检的新视角[J]. 生命科学, 2018,3(1): 63-72. ZHAO L N,ZHAO X H.Single cell sequencing analysis of circulating tumor cells: a new horizon of liquid biopsy[J]. Chinese Bull Life Sci, 2018, 30(1): 63-72. [49] ZHENG C H, ZHENG L T, YOO J, et al. Landscape of infiltrating T Cells in liver cancer revealed by single-cell sequencing[J]. Cell, 2017, 169(7): 1342-1356. [50] GUO X Y, ZHANG Y Y, ZHENG L T, et al. Global characterization of T Cell in non-small-cell lung cancer by single-cell sequencing[J]. Nat Med, 2018, 24(7): 978-985. [51] 李贱成,徐克前,单细胞转录组测序技术及应用[J]. 生命的化学, 2020, 40(8): 1208-1219. LI J C, XU K Q. Single cell RNA sequencing technology and its applications[J]. Chem Life, 2020,40(8): 1208-1219. [52] 吴春卉, 姜有为, 程鑫. 微流控芯片在单细胞捕获中的应用[J]. 科技先导, 2018, 36(16): 39-45. WU C H, WANG Y W, CHENG X. Application of microfluidic chip in single cell capture[J].Sci Tech Leader, 2018, 36(16): 39-45. [53] WU A R, NEFF N F, KALISKY T, et al. Quantitative assessment of single-cell RNA-sequencing methods[J]. Nat Meth, 2014, 11(1): 41-46. [54] MACOSKO E Z, BASU A, SATIJA R, et al. Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets[J]. Cell, 2015, 161(5): 1202-1214. [55] KLEIN A M , MAZUTIS L, AKARTUNA I, et al. Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells[J]. Cell, 2015, 161(5): 1187-1201. [56] ZHENG G, TERRY J M, BELGRADER P, et al. Massively parallel digital transcriptional profiling of single cells[J]. Nat Commun, 2017, 8(14049):1-12. [57] AZIZI E, CARR A J, PLITAS G, et al. Single cell map of diverse immune phenotypes in the breast tumor microenvironment[J]. Cell, 2018, 174(5): 1293-1308. [58] HAN X P, WANG R Y, ZHOU Y C, et al. Mapping the mouse cell atlas by microwell-seq [J].Cell, 2018, 22(172): 1091-1107. [59] 杨子宁, 郝莎, 程涛. 单细胞转录组测序技术新进展及其在造血系统研究中的应用[J]. 中国科学:生命科学, 2020, 50(3): 287-295. YANG Z N,HAO S, CHENG T. New Advances in single cell transcriptomic sequencing technology and its application in hematopoietic system[J].Sci Chinese Life Sci, 2020, 50(3): 287-295. [60] HASHIMSHONY T, SENDEROVICH N, AVITAL G, et al. CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq[J]. Genome Biol, 2016, 17(77): 1-7. [61] FU Y S, LI C M, LU S J, et al. Uniform and accurate single-cell sequencing based on emulsion whole-genome amplification[J]. Proc Natl Acad Sci, 2015,112(38): 11923-11928. [62] CHU W K, EDGE P, LEE H S, et al. Ultraaccurate genome sequencing and haplotyping of single human cells[J]. Proc Natl Acad Sci, 2017, 114(47): 12512-12517. [63] CHAPMAN A R, HE Z, LU S J, et al. Single cell transcriptome amplification with MALBAC[J]. PLoS ONE, 2015, 10(3): 1-12. [64] CHEN C Y, XING D, TAN L Z, et al. Single-cell whole-genome analyses by linear amplification via transposon insertion (LIANTI)[J]. Science, 2017, 356(6334): 189-194. [65] ZAHN H, STEIF A, LAKS E, et al. Scalable whole-genome single-cell library preparation without preamplification[J].Nat Meth, 2017, 14(2): 167-173. [66] RAMSKOLD D, LUO S, WANG Y C, et al. Full-length mRNA-seq from single cell levels of RNA and individual circulating tumor cells[J]. Nat Biotech, 2012, 30(8): 777-782. [67] POCELLI S, BJORKLUND A K, FARIDANI O R, et al. Smart-seq2 for sensitive full-length transcriptome profiling in single cells[J], Nat Meth, 2013, 10(11): 1096-1098. [68] ZIEGENHAIN C, VIETH B, PAREKH S, et al. Comparative analysis of single-cell RNA sequencing methods[J]. Mol Cell, 2017, 65(4): 631-643. [69] 阎海,王思振,焦宇辰,等. 一种快速构建扩增子文库的方法:中国107012139.A[P]. 2017-08-04. YAN H,WANG S Z, JIAO Y C,et al. A Fast method for constructing an amplicon library:CN,107012139.A [P]. 2017-08-04. [70] DI L, SUN Y, LI J, et al. RNA sequencing by direct tagmentation of RNA/DNA hybrids[J]. Proc Natl Acad Sci, 2020, 117(6): 2886-2893. [71] ROSENBERG A B, ROCO C M, MUSCAT R A, et al. Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding[J]. Science, 2018, 360(6385): 176-182. |