Stephen Quake
Publications
- Lineage structure of the human antibody repertoire in response to influenza vaccination. Sci Transl Med. 2013; (171): 171ra19
- Microfluidic serial digital to analog pressure converter for arbitrary pressure generation and contamination-free flow control. Lab Chip. 2013; (10): 1911-8
- Proteome-wide protein interaction measurements of bacterial proteins of unknown function. Proc Natl Acad Sci U S A. 2013; (2): 477-82
- Simultaneous measurement of amyloid fibril formation by dynamic light scattering and fluorescence reveals complex aggregation kinetics. PLoS One. 2013; (1): e54541
- Clonal evolution of preleukemic hematopoietic stem cells precedes human acute myeloid leukemia. Sci Transl Med. 2012; (149): 149ra118
- DNA sequencing: clinical applications of new DNA sequencing technologies. Circulation. 2012; (7): 931-44
- Digital PCR provides absolute quantitation of viral load for an occult RNA virus. J Virol Methods. 2012; (1): 45-50
- Genome-wide single-cell analysis of recombination activity and de novo mutation rates in human sperm. Cell. 2012; (2): 402-12
- High throughput automated chromatin immunoprecipitation as a platform for drug screening and antibody validation. Lab Chip. 2012; (12): 2190-8
- Identification of a cKit(+) colonic crypt base secretory cell that supports Lgr5(+) stem cells in mice. Gastroenterology. 2012; (5): 1195-1205.e6
- Microfluidic single-cell real-time PCR for comparative analysis of gene expression patterns. Nat Protoc. 2012; (5): 829-38
- Microfluidic very large scale integration (mVLSI) with integrated micromechanical valves. Lab Chip. 2012; (16): 2803-6
- Non-invasive prenatal measurement of the fetal genome. Nature. 2012; (7407): 320-4
- Quantitative analysis of the human airway microbial ecology reveals a pervasive signature for cystic fibrosis. Sci Transl Med. 2012; (153): 153ra130
- Single cell profiling of circulating tumor cells: transcriptional heterogeneity and diversity from breast cancer cell lines. PLoS One. 2012; (5): e33788
- Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB). Genome Res. 2012; (6): 1107-19
- Sizing up cell-free DNA. Clin Chem. 2012; (3): 489-90
- Systematic reconstruction of RNA functional motifs with high-throughput microfluidics. Nat Methods. 2012; (12): 1192-4
- An information theoretic, microfluidic-based single cell analysis permits identification of subpopulations among putatively homogeneous stem cells. PLoS One. 2011; (6): e21211
- Determinism and stochasticity during maturation of the zebrafish antibody repertoire. Proc Natl Acad Sci U S A. 2011; (13): 5348-53
- Digital MDA for enumeration of total nucleic acid contamination. Nucleic Acids Res. 2011; (4): e19
- Dynamic chromatin localization of Sirt6 shapes stress- and aging-related transcriptional networks. PLoS Genet. 2011; (6): e1002153
- Genome of a low-salinity ammonia-oxidizing archaeon determined by single-cell and metagenomic analysis. PLoS One. 2011; (2): e16626
- Genomic analysis at the single-cell level. Annu Rev Genet. 2011: 431-45
- Single-cell dissection of transcriptional heterogeneity in human colon tumors. Nat Biotechnol. 2011; (12): 1120-7
- Single-cell genomics. Nat Methods. 2011; (4): 311-4
- The RootChip: an integrated microfluidic chip for plant science. Plant Cell. 2011; (12): 4234-40
- Tracking single hematopoietic stem cells in vivo using high-throughput sequencing in conjunction with viral genetic barcoding. Nat Biotechnol. 2011; (10): 928-33
- Universal noninvasive detection of solid organ transplant rejection. Proc Natl Acad Sci U S A. 2011; (15): 6229-34
- Whole-genome molecular haplotyping of single cells. Nat Biotechnol. 2011; (1): 51-7
- A microfluidic oligonucleotide synthesizer. Nucleic Acids Res. 2010; (8): 2514-21
- Analysis of the size distributions of fetal and maternal cell-free DNA by paired-end sequencing. Clin Chem. 2010; (8): 1279-86
- Biocompatibility and Reduced Drug Absorption of Sol-Gel-Treated Poly(dimethyl siloxane) for Microfluidic Cell Culture Applications. Anal Chem. 2010
- Clinical assessment incorporating a personal genome. Lancet. 2010; (9725): 1525-35
- Colloidal lenses allow high-temperature single-molecule imaging and improve fluorophore photostability. Nat Nanotechnol. 2010; (2): 127-32
- Ostwald ripening of clusters during protein crystallization. Phys Rev Lett. 2010; (17): 178102
- Sensitivity of noninvasive prenatal detection of fetal aneuploidy from maternal plasma using shotgun sequencing is limited only by counting statistics. PLoS One. 2010; (5): e10439
- Single-cell NF-kappaB dynamics reveal digital activation and analogue information processing. Nature. 2010; (7303): 267-71
- An in vitro microfluidic approach to generating protein-interaction networks. Nat Methods. 2009; (1): 71-4
- Association of reactive oxygen species levels and radioresistance in cancer stem cells. Nature. 2009; (7239): 780-3
- Automated microfluidic chromatin immunoprecipitation from 2,000 cells. Lab Chip. 2009; (10): 1365-70
- Digital PCR provides sensitive and absolute calibration for high throughput sequencing. BMC Genomics. 2009: 116
- Experimental determination of the evolvability of a transcription factor. Proc Natl Acad Sci U S A. 2009; (44): 18650-5
- High-throughput sequencing of the zebrafish antibody repertoire. Science. 2009; (5928): 807-10
- In vitro embryo culture in defined, sub-microliter volumes. Dev Dyn. 2009; (4): 950-5
- Microfluidic digital PCR enables rapid prenatal diagnosis of fetal aneuploidy. Am J Obstet Gynecol. 2009; (5): 543.e1-7
- Single molecule measurement of the "speed limit" of DNA polymerase. Proc Natl Acad Sci U S A. 2009; (48): 20294-9
- Single-molecule sequencing of an individual human genome. Nat Biotechnol. 2009; (9): 847-50
- A synthetic Escherichia coli predator-prey ecosystem. Mol Syst Biol. 2008: 187
- Discovery of a hepatitis C target and its pharmacological inhibitors by microfluidic affinity analysis. Nat Biotechnol. 2008; (9): 1019-27
- Noninvasive diagnosis of fetal aneuploidy by shotgun sequencing DNA from maternal blood. Proc Natl Acad Sci U S A. 2008; (42): 16266-71
- At the interface of physics and biology. Biotechniques. 2007; (1): 19
- Detection of aneuploidy with digital polymerase chain reaction. Anal Chem. 2007; (19): 7576-9
- Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth. Proc Natl Acad Sci U S A. 2007; (29): 11889-94
- Lola regulates Drosophila olfactory projection neuron identity and targeting specificity. Neural Dev. 2007: 14
- Microfluidic large-scale integration: the evolution of design rules for biological automation. Annu Rev Biophys Biomol Struct. 2007: 213-31
- Nanoliter reactors improve multiple displacement amplification of genomes from single cells. PLoS Genet. 2007; (9): 1702-8
- Solvent resistant microfluidic DNA synthesizer. Lab Chip. 2007; (1): 24-6
- Versatile, fully automated, microfluidic cell culture system. Anal Chem. 2007; (22): 8557-63
- A microfluidic rectifier: anisotropic flow resistance at low Reynolds numbers. Phys Rev Lett. 2004; (9): 094501
- A nanoliter-scale nucleic acid processor with parallel architecture. Nat Biotechnol. 2004; (4): 435-9
- Microfluidic device reads up to four consecutive base pairs in DNA sequencing-by-synthesis. Nucleic Acids Res. 2004; (9): 2873-9
- Solvent-resistant photocurable liquid fluoropolymers for microfluidic device fabrication [corrected]. J Am Chem Soc. 2004; (8): 2322-3
- Systematic investigation of protein phase behavior with a microfluidic formulator. Proc Natl Acad Sci U S A. 2004; (40): 14431-6
- Tip-enhanced fluorescence microscopy at 10 nanometer resolution. Phys Rev Lett. 2004; (18): 180801
- Behavior of complex knots in single DNA molecules. Phys Rev Lett. 2003; (26 Pt 1): 265506
- Integrated nanoliter systems. Nat Biotechnol. 2003; (10): 1179-83
- Microfabricated fountain pens for high-density DNA arrays. Genome Res. 2003; (10): 2348-52
- Microfluidic memory and control devices. Science. 2003; (5621): 955-8
- Microfluidics in structural biology: smaller, faster em leader better. Curr Opin Struct Biol. 2003; (5): 538-44
- Polyelectrolyte surface interface for single-molecule fluorescence studies of DNA polymerase. Biotechniques. 2003; (3): 505-10
- Quantifying double-strand breaks and clustered damages in DNA by single-molecule laser fluorescence sizing. Biophys J. 2003; (2 Pt 1): 1281-90
- Sequence information can be obtained from single DNA molecules. Proc Natl Acad Sci U S A. 2003; (7): 3960-4
- Solving the "world-to-chip" interface problem with a microfluidic matrix. Anal Chem. 2003; (18): 4718-23
- A nanoliter rotary device for polymerase chain reaction. Electrophoresis. 2002; (10): 1531-6
- A robust and scalable microfluidic metering method that allows protein crystal growth by free interface diffusion. Proc Natl Acad Sci U S A. 2002; (26): 16531-6
- An integrated microfabricated cell sorter. Anal Chem. 2002; (11): 2451-7
- Gene expression analysis with universal n-mer arrays. Genome Res. 2002; (1): 145-52
- Identification and confirmation of a module of coexpressed genes. Genome Res. 2002; (10): 1517-22
- Microfluidic large-scale integration. Science. 2002; (5593): 580-4
- Number, density, and surface/cytoplasmic distribution of GABA transporters at presynaptic structures of knock-in mice carrying GABA transporter subtype 1-green fluorescent protein fusions. J Neurosci. 2002; (23): 10251-66
- Significance and statistical errors in the analysis of DNA microarray data. Proc Natl Acad Sci U S A. 2002; (20): 12975-8
- Velocity-independent microfluidic flow cytometry. Electrophoresis. 2002; (16): 2653-7
- Dynamic pattern formation in a vesicle-generating microfluidic device. Phys Rev Lett. 2001; (18): 4163-6
- Single-molecule measurements calibrate green fluorescent protein surface densities on transparent beads for use with 'knock-in' animals and other expression systems. J Neurosci Methods. 2001; (1): 55-63
- Femtonewton force spectroscopy of single extended DNA molecules. Phys Rev Lett. 2000; (21): 5014-7
- From micro- to nanofabrication with soft materials. Science. 2000; (5496): 1536-40
- Monolithic microfabricated valves and pumps by multilayer soft lithography. Science. 2000; (5463): 113-6
- A microfabricated device for sizing and sorting DNA molecules. Proc Natl Acad Sci U S A. 1999; (1): 11-3
- A microfabricated fluorescence-activated cell sorter. Nat Biotechnol. 1999; (11): 1109-11
- Single-molecule fluorescence observed with mercury lamp illumination. Biotechniques. 1999; (5): 1008-14
- The dynamics of partially extended single molecules of DNA. Nature. 1997; (6638): 151-4
- Fast Monte Carlo algorithms for knotted polymers. Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1995; (1): 1176-1180
- Relaxation of a single DNA molecule observed by optical microscopy. Science. 1994; (5160): 822-6
- Topological effects of knots in polymers. Phys Rev Lett. 1994; (24): 3317-3320
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