Eukaryotic Single-Cell mRNA Sequencing
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[1] H. Ueda,et al. Erratum to: Quartz-Seq: a highly reproducible and sensitive single-cell RNA sequencing method, reveals non-genetic gene-expression heterogeneity , 2017, Genome Biology.
[2] Allon M. Klein,et al. Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells , 2015, Cell.
[3] Nevenka Dimitrova,et al. Optimizing sparse sequencing of single cells for highly multiplex copy number profiling , 2015, Genome research.
[4] Evan Z. Macosko,et al. Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets , 2015, Cell.
[5] J. Radich,et al. Single-cell genotyping demonstrates complex clonal diversity in acute myeloid leukemia , 2015, Science Translational Medicine.
[6] N. Navin,et al. SNES: single nucleus exome sequencing , 2015, Genome Biology.
[7] Steven L Salzberg,et al. HISAT: a fast spliced aligner with low memory requirements , 2015, Nature Methods.
[8] S. Linnarsson,et al. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq , 2015, Science.
[9] S. P. Fodor,et al. Combinatorial labeling of single cells for gene expression cytometry , 2015, Science.
[10] C. Walsh,et al. Cell Lineage Analysis in Human Brain Using Endogenous Retroelements , 2015, Neuron.
[11] Siddharth S. Dey,et al. Integrated genome and transcriptome sequencing from the same cell , 2014, Nature Biotechnology.
[12] W. Koh,et al. Dissecting the clonal origins of childhood acute lymphoblastic leukemia by single-cell genomics , 2014, Proceedings of the National Academy of Sciences.
[13] Michael C. Schatz,et al. Interactive analysis and quality assessment of single-cell copy-number variations , 2014, bioRxiv.
[14] Lana X. Garmire,et al. Co-detection and sequencing of genes and transcripts from the same single cells facilitated by a microfluidics platform , 2014, Scientific Reports.
[15] Annapurna Poduri,et al. Single-Cell, Genome-wide Sequencing Identifies Clonal Somatic Copy-Number Variation in the Human Brain , 2014, Cell reports.
[16] Charles Gawad,et al. A Quantitative Comparison of Single-Cell Whole Genome Amplification Methods , 2014, PloS one.
[17] N. Navin,et al. Clonal Evolution in Breast Cancer Revealed by Single Nucleus Genome Sequencing , 2014, Nature.
[18] Alex A. Pollen,et al. Low-coverage single-cell mRNA sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex , 2014, Nature Biotechnology.
[19] Ryan A. Kellogg,et al. High-throughput microfluidic single-cell analysis pipeline for studies of signaling dynamics , 2014, Nature Protocols.
[20] Rona S. Gertner,et al. Single cell RNA Seq reveals dynamic paracrine control of cellular variation , 2014, Nature.
[21] J. C. Love,et al. EGFR variant heterogeneity in glioblastoma resolved through single-nucleus sequencing. , 2014, Cancer discovery.
[22] P. Kharchenko,et al. Bayesian approach to single-cell differential expression analysis , 2014, Nature Methods.
[23] A. Oudenaarden,et al. Validation of noise models for single-cell transcriptomics , 2014, Nature Methods.
[24] Cole Trapnell,et al. The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells , 2014, Nature Biotechnology.
[25] D. Cacchiarelli,et al. Characterization of directed differentiation by high-throughput single-cell RNA-Seq , 2014, bioRxiv.
[26] I. Amit,et al. Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types , 2014, Science.
[27] S. P. Fodor,et al. Molecular indexing enables quantitative targeted RNA sequencing and reveals poor efficiencies in standard library preparations , 2014, Proceedings of the National Academy of Sciences.
[28] Gioele La Manno,et al. Quantitative single-cell RNA-seq with unique molecular identifiers , 2013, Nature Methods.
[29] P. Nürnberg,et al. Enrichment of target sequences for next-generation sequencing applications in research and diagnostics , 2013, Biological chemistry.
[30] Åsa K. Björklund,et al. Full-length RNA-seq from single cells using Smart-seq2 , 2014, Nature Protocols.
[31] N. Neff,et al. Quantitative assessment of single-cell RNA-sequencing methods , 2013, Nature Methods.
[32] Eivind Hovig,et al. Performance comparison of four exome capture systems for deep sequencing , 2014, BMC Genomics.
[33] Rong Li,et al. Genome Analyses of Single Human Oocytes , 2013, Cell.
[34] X. Xie,et al. Reproducible copy number variation patterns among single circulating tumor cells of lung cancer patients , 2013, Proceedings of the National Academy of Sciences.
[35] Kun Zhang,et al. Massively parallel polymerase cloning and genome sequencing of single cells using nanoliter microwells , 2013, Nature Biotechnology.
[36] Åsa K. Björklund,et al. Smart-seq2 for sensitive full-length transcriptome profiling in single cells , 2013, Nature Methods.
[37] Ira M. Hall,et al. Mosaic Copy Number Variation in Human Neurons , 2013, Science.
[38] Mauricio O. Carneiro,et al. From FastQ Data to High‐Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline , 2013, Current protocols in bioinformatics.
[39] Aleksandra A. Kolodziejczyk,et al. Accounting for technical noise in single-cell RNA-seq experiments , 2013, Nature Methods.
[40] Jay Shendure,et al. Single molecule molecular inversion probes for targeted, high-accuracy detection of low-frequency variation , 2013, Genome research.
[41] M. Stratton,et al. Single-cell paired-end genome sequencing reveals structural variation per cell cycle , 2013, Nucleic acids research.
[42] P. Blainey. The future is now: single-cell genomics of bacteria and archaea. , 2013, FEMS microbiology reviews.
[43] David G Hendrickson,et al. Differential analysis of gene regulation at transcript resolution with RNA-seq , 2012, Nature Biotechnology.
[44] Mary Goldman,et al. The UCSC Genome Browser database: extensions and updates 2013 , 2012, Nucleic Acids Res..
[45] S. Gabriel,et al. Somatic rearrangements across cancer reveal classes of samples with distinct patterns of DNA breakage and rearrangement-induced hypermutability , 2012, Genome research.
[46] Andrew McDavid,et al. Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments , 2012, Bioinform..
[47] Stephen R Quake,et al. Optofluidic cell selection from complex microbial communities for single-genome analysis. , 2013, Methods in enzymology.
[48] Thomas R. Gingeras,et al. STAR: ultrafast universal RNA-seq aligner , 2013, Bioinform..
[49] Cole Trapnell,et al. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions , 2013, Genome Biology.
[50] J. Marioni,et al. Inferring the kinetics of stochastic gene expression from single-cell RNA-sequencing data , 2013, Genome Biology.
[51] X. Xie,et al. Genome-Wide Detection of Single-Nucleotide and Copy-Number Variations of a Single Human Cell , 2012, Science.
[52] Michael L. Simpson,et al. Transcriptional burst frequency and burst size are equally modulated across the human genome , 2012, Proceedings of the National Academy of Sciences.
[53] T. Hashimshony,et al. CEL-Seq: single-cell RNA-Seq by multiplexed linear amplification. , 2012, Cell reports.
[54] I. Weissman,et al. Clonal Evolution of Preleukemic Hematopoietic Stem Cells Precedes Human Acute Myeloid Leukemia , 2012, Science Translational Medicine.
[55] Günter P. Wagner,et al. Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples , 2012, Theory in Biosciences.
[56] Jesse J. Salk,et al. Detection of ultra-rare mutations by next-generation sequencing , 2012, Proceedings of the National Academy of Sciences.
[57] Stephen R. Quake,et al. Genome-wide Single-Cell Analysis of Recombination Activity and De Novo Mutation Rates in Human Sperm , 2012, Cell.
[58] Xiaoqing Yu,et al. How do alignment programs perform on sequencing data with varying qualities and from repetitive regions? , 2012, BioData Mining.
[59] R. Sandberg,et al. Full-Length mRNA-Seq from single cell levels of RNA and individual circulating tumor cells , 2012, Nature Biotechnology.
[60] Michael Wigler,et al. Genome-wide copy number analysis of single cells , 2012, Nature Protocols.
[61] Pawel Zajac,et al. Highly multiplexed and strand-specific single-cell RNA 5′ end sequencing , 2012, Nature Protocols.
[62] Alexander Schliep,et al. CLEVER: clique-enumerating variant finder , 2012, Bioinform..
[63] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[64] Christopher A. Miller,et al. VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing. , 2012, Genome research.
[65] David R. Kelley,et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks , 2012, Nature Protocols.
[66] Tony Z. Jia,et al. Digital RNA sequencing minimizes sequence-dependent bias and amplification noise with optimized single-molecule barcodes , 2012, Proceedings of the National Academy of Sciences.
[67] S. Linnarsson,et al. Counting absolute numbers of molecules using unique molecular identifiers , 2011, Nature Methods.
[68] Benjamin J. Raphael,et al. An integrative probabilistic model for identification of structural variation in sequencing data , 2012, Genome Biology.
[69] J. V. Moran,et al. Ataxia telangiectasia mutated (ATM) modulates long interspersed element-1 (L1) retrotransposition in human neural stem cells , 2011, Proceedings of the National Academy of Sciences.
[70] P. J. van der Zaag,et al. Targeted enrichment of genomic DNA regions for next-generation sequencing , 2011, Briefings in functional genomics.
[71] Pradeep S Rajendran,et al. Single-cell dissection of transcriptional heterogeneity in human colon tumors , 2011, Nature Biotechnology.
[72] Matthew Ruffalo,et al. Comparative analysis of algorithms for next-generation sequencing read alignment , 2011, Bioinform..
[73] Anders Ståhlberg,et al. Single-cell gene-expression profiling and its potential diagnostic applications , 2011, Expert review of molecular diagnostics.
[74] M. Salit,et al. Synthetic Spike-in Standards for Rna-seq Experiments Material Supplemental Open Access License Commons Creative , 2022 .
[75] Colin N. Dewey,et al. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome , 2011, BMC Bioinformatics.
[76] H. Hakonarson,et al. SNVer: a statistical tool for variant calling in analysis of pooled or individual next-generation sequencing data , 2011, Nucleic acids research.
[77] Samuel Aparicio,et al. High-throughput microfluidic single-cell RT-qPCR , 2011, Proceedings of the National Academy of Sciences.
[78] M. Gerstein,et al. CNVnator: an approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing. , 2011, Genome research.
[79] Marcel Martin. Cutadapt removes adapter sequences from high-throughput sequencing reads , 2011 .
[80] J. Troge,et al. Tumour evolution inferred by single-cell sequencing , 2011, Nature.
[81] M. DePristo,et al. A framework for variation discovery and genotyping using next-generation DNA sequencing data , 2011, Nature Genetics.
[82] Alison S. Devonshire,et al. Applicability of RNA standards for evaluating RT-qPCR assays and platforms , 2011, BMC Genomics.
[83] Robert A. Edwards,et al. Quality control and preprocessing of metagenomic datasets , 2011, Bioinform..
[84] K. Anderson,et al. Genetic variegation of clonal architecture and propagating cells in leukaemia , 2011, Nature.
[85] Thomas M. Keane,et al. Enhanced structural variant and breakpoint detection using SVMerge by integration of multiple detection methods and local assembly , 2010, Genome Biology.
[86] Fred H. Gage,et al. L1 retrotransposition in neurons is modulated by MeCP2 , 2010, Nature.
[87] M. DePristo,et al. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. , 2010, Genome research.
[88] Vikas Bansal,et al. A statistical method for the detection of variants from next-generation resequencing of DNA pools , 2010, Bioinform..
[89] J Christopher Love,et al. Development and optimization of a process for automated recovery of single cells identified by microengraving , 2010, Biotechnology progress.
[90] Cole Trapnell,et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. , 2010, Nature biotechnology.
[91] Emily H Turner,et al. Target-enrichment strategies for next-generation sequencing , 2010, Nature Methods.
[92] Eric T. Wang,et al. An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data , 2009, PLoS Comput. Biol..
[93] Ken Chen,et al. VarScan: variant detection in massively parallel sequencing of individual and pooled samples , 2009, Bioinform..
[94] R. Wilson,et al. BreakDancer: An algorithm for high resolution mapping of genomic structural variation , 2009, Nature Methods.
[95] Siu-Ming Yiu,et al. SOAP2: an improved ultrafast tool for short read alignment , 2009, Bioinform..
[96] Gonçalo R. Abecasis,et al. The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..
[97] Richard Durbin,et al. Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .
[98] Catalin C. Barbacioru,et al. mRNA-Seq whole-transcriptome analysis of a single cell , 2009, Nature Methods.
[99] Lior Pachter,et al. Sequence Analysis , 2020, Definitions.
[100] Derek Y. Chiang,et al. High-resolution mapping of copy-number alterations with massively parallel sequencing , 2009, Nature Methods.
[101] Cole Trapnell,et al. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome , 2009, Genome Biology.
[102] Martin Hemberg,et al. Quantification of mRNA in single cells and modelling of RT-qPCR induced noise , 2008, BMC Molecular Biology.
[103] Kuo-Kang Liu,et al. Optical tweezers for single cells , 2008, Journal of The Royal Society Interface.
[104] B. Williams,et al. Mapping and quantifying mammalian transcriptomes by RNA-Seq , 2008, Nature Methods.
[105] Gideon Rechavi,et al. Amplification of multiple genomic loci from single cells isolated by laser micro-dissection of tissues , 2008, BMC biotechnology.
[106] Hanlee P. Ji,et al. Multigene amplification and massively parallel sequencing for cancer mutation discovery , 2007, Proceedings of the National Academy of Sciences.
[107] E. S. Venkatraman,et al. A faster circular binary segmentation algorithm for the analysis of array CGH data , 2007, Bioinform..
[108] E. Petricoin,et al. Laser Capture Microdissection , 1996, Science.
[109] M. Wigler,et al. Circular binary segmentation for the analysis of array-based DNA copy number data. , 2004, Biostatistics.
[110] H. Hug,et al. Measurement of the number of molecules of a single mRNA species in a complex mRNA preparation. , 2003, Journal of theoretical biology.
[111] S. Kingsmore,et al. Comprehensive human genome amplification using multiple displacement amplification , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[112] A. Chenchik,et al. Reverse transcriptase template switching: a SMART approach for full-length cDNA library construction. , 2001, BioTechniques.