Stephen R Quake

Stephen R Quake

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Stephen R Quake

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Addressing Complex Matrix Interference Improves Multiplex Food Allergen Detection by Targeted LC-MS/MS.

Anal Chem 2019 Aug 24;91(15):9760-9769. Epub 2019 Jul 24.

Department of Bioengineering , Stanford University , Stanford , California 94305 , United States.

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http://dx.doi.org/10.1021/acs.analchem.9b01388DOI Listing
August 2019

Viral taxonomy derived from evolutionary genome relationships.

PLoS One 2019 14;14(8):e0220440. Epub 2019 Aug 14.

Departments of Bioengineering and Applied Physics, Stanford University and Chan Zuckerberg Biohub, Stanford, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0220440PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6693820PMC
August 2019

Modeling Spatial Correlation of Transcripts with Application to Developing Pancreas.

Sci Rep 2019 Apr 3;9(1):5592. Epub 2019 Apr 3.

Department of Biomedical Data Science, Stanford University, 450 Serra Mall, Stanford, CA, 94305, USA.

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http://dx.doi.org/10.1038/s41598-019-41951-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6447534PMC
April 2019

Donor-derived cell-free DNA predicts allograft failure and mortality after lung transplantation.

EBioMedicine 2019 Feb 26;40:541-553. Epub 2019 Jan 26.

Genomic Research Alliance for Transplantation (GRAfT), 10 Center Drive, 7S261, Bethesda, MD 20982, United States; Division of Intramural Research, National Heart, Lung and Blood Institute, 10 Center Drive, 7S261, Bethesda, MD 20982, United States. Electronic address:

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http://dx.doi.org/10.1016/j.ebiom.2018.12.029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6412014PMC
February 2019

Signatures of selection in the human antibody repertoire: Selective sweeps, competing subclones, and neutral drift.

Proc Natl Acad Sci U S A 2019 01 8;116(4):1261-1266. Epub 2019 Jan 8.

Biophysics Graduate Program, Stanford University, Stanford, CA 94305;

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http://www.pnas.org/lookup/doi/10.1073/pnas.1814213116
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http://dx.doi.org/10.1073/pnas.1814213116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6347681PMC
January 2019

High-affinity allergen-specific human antibodies cloned from single IgE B cell transcriptomes.

Science 2018 12;362(6420):1306-1309

Department of Bioengineering, Stanford University, Stanford, CA 94305, USA.

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http://www.sciencemag.org/lookup/doi/10.1126/science.aau2599
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http://dx.doi.org/10.1126/science.aau2599DOI Listing
December 2018

Neutral and selective dynamics in a synthetic microbial community.

Proc Natl Acad Sci U S A 2018 10 28;115(42):E9842-E9848. Epub 2018 Sep 28.

Department of Bioengineering, Stanford University, Stanford, CA 94305;

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http://dx.doi.org/10.1073/pnas.1808118115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6196497PMC
October 2018

Single Cell Restriction Enzyme-Based Analysis of Methylation at Genomic Imprinted Regions in Preimplantation Mouse Embryos.

Methods Mol Biol 2017 ;1605:171-189

Developmental Epigenetics and Disease Laboratory, Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.

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http://dx.doi.org/10.1007/978-1-4939-6988-3_12DOI Listing
February 2018

Noninvasive Prenatal Diagnosis of Single-Gene Disorders by Use of Droplet Digital PCR.

Clin Chem 2018 02 2;64(2):336-345. Epub 2017 Nov 2.

Department of Bioengineering, Stanford University, Stanford, CA;

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http://dx.doi.org/10.1373/clinchem.2017.278101DOI Listing
February 2018

High fidelity hypothermic preservation of primary tissues in organ transplant preservative for single cell transcriptome analysis.

BMC Genomics 2018 02 13;19(1):140. Epub 2018 Feb 13.

Department of Bioengineering, Stanford University, James H Clark Center, E300, 318 Campus Drive, Stanford, CA, 94305, USA.

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http://dx.doi.org/10.1186/s12864-018-4512-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5811979PMC
February 2018

Single-cell transcriptional dynamics of flavivirus infection.

Elife 2018 02 16;7. Epub 2018 Feb 16.

Department of Bioengineering, Stanford University, Stanford, United States.

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http://dx.doi.org/10.7554/eLife.32942DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5826272PMC
February 2018

Antigen Identification for Orphan T Cell Receptors Expressed on Tumor-Infiltrating Lymphocytes.

Cell 2018 01 21;172(3):549-563.e16. Epub 2017 Dec 21.

Departments of Molecular and Cellular Physiology and Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA; The Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2017.11.043DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5786495PMC
January 2018

Simultaneously Monitoring Immune Response and Microbial Infections during Pregnancy through Plasma cfRNA Sequencing.

Clin Chem 2017 Nov 13;63(11):1695-1704. Epub 2017 Sep 13.

Departments of Bioengineering and Applied Physics, Stanford University, and Chan Zuckerberg Biohub, Stanford, CA;

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http://dx.doi.org/10.1373/clinchem.2017.273888DOI Listing
November 2017

Classifying Drosophila Olfactory Projection Neuron Subtypes by Single-Cell RNA Sequencing.

Cell 2017 Nov;171(5):1206-1220.e22

Department of Biology and Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2017.10.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6095479PMC
November 2017

Single-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation Patterns.

Cell 2017 Oct 28;171(2):321-330.e14. Epub 2017 Sep 28.

Department of Bioengineering and Applied Physics, Stanford University, Stanford, CA 94305, USA; Chan Zuckerberg Biohub, San Francisco, CA 94158, USA; Institute of Cellular Therapeutics, Allegheny Health Network, 320 East North Avenue, Pittsburgh, PA 15212, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2017.09.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6047899PMC
October 2017

Human Astrocyte Maturation Captured in 3D Cerebral Cortical Spheroids Derived from Pluripotent Stem Cells.

Neuron 2017 Aug;95(4):779-790.e6

Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.neuron.2017.07.035DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5890820PMC
August 2017

Quantitative Analysis of Synthetic Cell Lineage Tracing Using Nuclease Barcoding.

ACS Synth Biol 2017 06 10;6(6):936-942. Epub 2017 Mar 10.

Department of Bioengineering, Stanford University , Stanford, California 94305, United States.

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http://dx.doi.org/10.1021/acssynbio.6b00309DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5724935PMC
June 2017

Sanativo Wound Healing Product Does Not Accelerate Reepithelialization in a Mouse Cutaneous Wound Healing Model.

Plast Reconstr Surg 2017 Feb;139(2):343-352

Stanford, Calif. From the Department of Surgery, Division of Plastic and Reconstructive Surgery, and the Department of Bioengineering, Stanford University School of Medicine.

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http://dx.doi.org/10.1097/PRS.0000000000003013DOI Listing
February 2017

B cell repertoires in HLA-sensitized kidney transplant candidates undergoing desensitization therapy.

J Transl Med 2017 01 13;15(1). Epub 2017 Jan 13.

Department of Medicine, Stanford University School of Medicine, 750 Welch Road, Palo Alto, CA, 94304, USA.

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http://dx.doi.org/10.1186/s12967-017-1118-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5237299PMC
January 2017

Phylogenetic analysis of the human antibody repertoire reveals quantitative signatures of immune senescence and aging.

Proc Natl Acad Sci U S A 2017 01 17;114(5):1105-1110. Epub 2017 Jan 17.

Department of Applied Physics, Stanford University, Stanford, CA 94305;

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http://dx.doi.org/10.1073/pnas.1617959114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5293037PMC
January 2017

Transcriptomic Profiling Maps Anatomically Patterned Subpopulations among Single Embryonic Cardiac Cells.

Dev Cell 2016 11 10;39(4):491-507. Epub 2016 Nov 10.

Cardiovascular Institute, Stanford University School of Medicine, Stanford, CA 94305, USA; Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA; Division of Cardiovascular Medicine, Department of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.devcel.2016.10.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5130110PMC
November 2016

Early somatic mosaicism is a rare cause of long-QT syndrome.

Proc Natl Acad Sci U S A 2016 10 28;113(41):11555-11560. Epub 2016 Sep 28.

Stanford Center for Inherited Cardiovascular Disease, Stanford University School of Medicine, Stanford, CA 94305; Child Health Research Institute, Stanford University School of Medicine, Stanford, CA 94305; Division of Cardiovascular Medicine, Stanford University School of Medicine, Stanford, CA 94305;

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http://dx.doi.org/10.1073/pnas.1607187113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5068256PMC
October 2016

Food allergen detection by mass spectrometry: the role of systems biology.

NPJ Syst Biol Appl 2016 29;2:16022. Epub 2016 Sep 29.

Department of Bioengineering, Stanford University, Stanford, CA, USA.

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http://dx.doi.org/10.1038/npjsba.2016.22DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5516885PMC
September 2016

Single-cell RNAseq reveals cell adhesion molecule profiles in electrophysiologically defined neurons.

Proc Natl Acad Sci U S A 2016 08 16;113(35):E5222-31. Epub 2016 Aug 16.

Department of Molecular and Cellular Physiology, Stanford University, Stanford, CA 94305; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305

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http://dx.doi.org/10.1073/pnas.1610155113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5024636PMC
August 2016

Cellular Taxonomy of the Mouse Striatum as Revealed by Single-Cell RNA-Seq.

Cell Rep 2016 07 14;16(4):1126-1137. Epub 2016 Jul 14.

Departments of Bioengineering and Applied Physics, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.06.059DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5004635PMC
July 2016

Developmental cell death programs license cytotoxic cells to eliminate histocompatible partners.

Proc Natl Acad Sci U S A 2016 Jun 23;113(23):6520-5. Epub 2016 May 23.

Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, CA 94305; Department of Pathology, Hopkins Marine Station, Stanford University, Pacific Grove, CA 93950; Ludwig Center for Cancer Stem Cell Research and Medicine, Stanford University School of Medicine, Stanford, CA 94305

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http://dx.doi.org/10.1073/pnas.1606276113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4988592PMC
June 2016

Microfluidics Technologies for Low Cell Number Chromatin Immunoprecipitation.

Cold Spring Harb Protoc 2016 Apr 1;2016(4):pdb.prot084996. Epub 2016 Apr 1.

Department of Bioengineering, Stanford University, Stanford, California 94305; Howard Hughes Medical Institute, Stanford, California 94305.

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http://dx.doi.org/10.1101/pdb.prot084996DOI Listing
April 2016

Simultaneous single-molecule epigenetic imaging of DNA methylation and hydroxymethylation.

Proc Natl Acad Sci U S A 2016 Apr 28;113(16):4338-43. Epub 2016 Mar 28.

Department of Bioengineering, Stanford University, Stanford, CA 94305; Department of Applied Physics, Stanford University, Stanford, CA 94305; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305

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http://dx.doi.org/10.1073/pnas.1600223113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4843451PMC
April 2016

A reusable microfluidic device provides continuous measurement capability and improves the detection limit of digital biology.

Lab Chip 2016 04;16(9):1573-8

Department of Bioengineering, Stanford University, Stanford, CA 94305, USA. and Howard Hughes Medical Institute, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1039/c6lc00194gDOI Listing
April 2016

Single-cell genome sequencing: current state of the science.

Nat Rev Genet 2016 Mar 25;17(3):175-88. Epub 2016 Jan 25.

Departments of Bioengineering and Applied Physics, Stanford University, Stanford, California 94304, USA.

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http://dx.doi.org/10.1038/nrg.2015.16DOI Listing
March 2016

A quantitative comparison of single-cell whole genome amplification methods.

PLoS One 2014 19;9(8):e105585. Epub 2014 Aug 19.

Department of Applied Physics, Stanford University, Stanford, California, United States of America; Department of Bioengineering, Stanford University, Stanford, California, United States of America; Howard Hughes Medical Institute, Stanford, California, United States of America.

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http://thebigone.stanford.edu/papers/C_deBourcy_PLOS-ONE_8-2
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http://dx.plos.org/10.1371/journal.pone.0105585
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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0105585PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4138190PMC
December 2015

Noninvasive monitoring of infection and rejection after lung transplantation.

Proc Natl Acad Sci U S A 2015 Oct 12;112(43):13336-41. Epub 2015 Oct 12.

Department of Bioengineering, Stanford University, Stanford, CA 94305; Department of Applied Physics, Stanford University, Stanford, CA 94305; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305;

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http://dx.doi.org/10.1073/pnas.1517494112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4629384PMC
October 2015

Monitoring pharmacologically induced immunosuppression by immune repertoire sequencing to detect acute allograft rejection in heart transplant patients: a proof-of-concept diagnostic accuracy study.

PLoS Med 2015 Oct 14;12(10):e1001890. Epub 2015 Oct 14.

Department of Bioengineering, Stanford University, Stanford, California, United States of America; Department of Applied Physics, Stanford University, Stanford, California, United States of America; Howard Hughes Medical Institute, Stanford, California, United States of America.

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http://dx.plos.org/10.1371/journal.pmed.1001890
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http://dx.doi.org/10.1371/journal.pmed.1001890DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4605651PMC
October 2015

Digital signaling decouples activation probability and population heterogeneity.

Elife 2015 Oct 21;4:e08931. Epub 2015 Oct 21.

Department of Biosystems Science and Engineering, Eidgenössische Technische Hochschule Zürich, Basel, Switzerland.

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http://dx.doi.org/10.7554/eLife.08931DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4608393PMC
October 2015

Novel exons and splice variants in the human antibody heavy chain identified by single cell and single molecule sequencing.

PLoS One 2015 22;10(1):e0117050. Epub 2015 Jan 22.

Dept. of Bioengineering, Stanford University, Stanford, California, United States of America; Dept. of Applied Physics, Stanford University, Stanford, California, United States of America; Howard Hughes Medical Institute, Chevy Chase, Maryland, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0117050PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4303433PMC
September 2015

KIT Signaling Promotes Growth of Colon Xenograft Tumors in Mice and Is Up-Regulated in a Subset of Human Colon Cancers.

Gastroenterology 2015 Sep 28;149(3):705-17.e2. Epub 2015 May 28.

Division of Gastroenterology and Hepatology, Stanford School of Medicine, Stanford, California; Stanford Institute for Stem Cell Biology and Regenerative Medicine, Stanford, California. Electronic address:

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http://dx.doi.org/10.1053/j.gastro.2015.05.042DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4550533PMC
September 2015

Read count-based method for high-throughput allelic genotyping of transposable elements and structural variants.

BMC Genomics 2015 Jul 8;16:508. Epub 2015 Jul 8.

Microfluidics Systems Biology Lab, Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Proteos Building, Room #03-04, 61 Biopolis Drive, Singapore, 138673, Singapore.

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http://dx.doi.org/10.1186/s12864-015-1700-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4494700PMC
July 2015

A survey of human brain transcriptome diversity at the single cell level.

Proc Natl Acad Sci U S A 2015 Jun 18;112(23):7285-90. Epub 2015 May 18.

Departments of Bioengineering and Applied Physics, Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305

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http://www.pnas.org/lookup/doi/10.1073/pnas.1507125112
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http://dx.doi.org/10.1073/pnas.1507125112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4466750PMC
June 2015

Clonal Deletion Prunes but Does Not Eliminate Self-Specific αβ CD8(+) T Lymphocytes.

Immunity 2015 May;42(5):929-41

Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.immuni.2015.05.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4455602PMC
May 2015

Multiplexed locus-specific analysis of DNA methylation in single cells.

Nat Protoc 2015 Apr 26;10(4):619-31. Epub 2015 Mar 26.

Developmental Epigenetics and Disease Lab, Institute of Molecular and Cell Biology (IMCB), A*STAR, Singapore.

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http://dx.doi.org/10.1038/nprot.2015.041DOI Listing
April 2015

A biotic game design project for integrated life science and engineering education.

PLoS Biol 2015 Mar 25;13(3):e1002110. Epub 2015 Mar 25.

Department of Bioengineering, Stanford University, Stanford, California, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.1002110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4373802PMC
March 2015

Dissecting noncoding and pathogen RNA-protein interactomes.

RNA 2015 Jan 19;21(1):135-43. Epub 2014 Nov 19.

Program in Epithelial Biology, Stanford University School of Medicine, Stanford, California 94305, USA Howard Hughes Medical Institute, Stanford University, Stanford, California 94305, USA

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http://dx.doi.org/10.1261/rna.047803.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4274633PMC
January 2015

Mapping of protein-protein interactions of E. coli RNA polymerase with microfluidic mechanical trapping.

PLoS One 2014 18;9(3):e91542. Epub 2014 Mar 18.

Department of Applied Physics, Stanford University, Stanford, California, United States of America; Department of Bioengineering and HHMI, Stanford University, Stanford, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0091542PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3958368PMC
December 2014

A cell-intrinsic role for TLR2-MYD88 in intestinal and breast epithelia and oncogenesis.

Nat Cell Biol 2014 Dec 2;16(12):1238-48. Epub 2014 Nov 2.

1] Stanford Institute for Stem Cell Biology and Regenerative Medicine, Stanford University, 265 Campus Drive Stanford, California 94305, USA [2] Department of medicine, Division of Oncology, Stanford University, Stanford, California 94305, USA.

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http://dx.doi.org/10.1038/ncb3058DOI Listing
December 2014

Dissecting the clonal origins of childhood acute lymphoblastic leukemia by single-cell genomics.

Proc Natl Acad Sci U S A 2014 Dec 25;111(50):17947-52. Epub 2014 Nov 25.

Departments of Bioengineering and Applied Physics, Stanford University and Howard Hughes Medical Institute, Stanford,CA 94305

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http://dx.doi.org/10.1073/pnas.1420822111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4273416PMC
December 2014

Multiplexed analysis of protein-ligand interactions by fluorescence anisotropy in a microfluidic platform.

Anal Chem 2014 Oct 25;86(19):9901-8. Epub 2014 Sep 25.

Microfluidics Systems Biology Lab, Institute of Molecular and Cell Biology (IMCB), A*STAR , 138673, Singapore.

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http://dx.doi.org/10.1021/ac502605fDOI Listing
October 2014

An implantable microfluidic device for self-monitoring of intraocular pressure.

Nat Med 2014 Sep 24;20(9):1074-8. Epub 2014 Aug 24.

1] Department of Ophthalmology, Stanford University, Stanford, California, USA. [2] Hansen Experimental Physics Laboratory, Stanford University, Stanford, California, USA. [3] The Mina &Everard Goodman Faculty of Life Sciences, Bar Ilan University, Ramat-Gan, Israel.

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http://www.nature.com/articles/nm.3621
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http://dx.doi.org/10.1038/nm.3621DOI Listing
September 2014

RNA-guided endonuclease provides a therapeutic strategy to cure latent herpesviridae infection.

Proc Natl Acad Sci U S A 2014 Sep 25;111(36):13157-62. Epub 2014 Aug 25.

Department of Bioengineering, Department of Applied Physics, and Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305

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http://dx.doi.org/10.1073/pnas.1410785111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4246930PMC
September 2014

Noninvasive prenatal diagnosis in a fetus at risk for methylmalonic acidemia.

Genet Med 2014 Jul 9;16(7):564-7. Epub 2014 Jan 9.

1] Department of Bioengineering, Stanford University, Stanford, California, USA [2] Department of Applied Physics, Stanford University, Stanford, California, USA [3] Howard Hughes Medical Institute, Stanford University, Stanford, California, USA.

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http://dx.doi.org/10.1038/gim.2013.194DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4079742PMC
July 2014

Linkage disequilibrium and signatures of positive selection around LINE-1 retrotransposons in the human genome.

Proc Natl Acad Sci U S A 2014 Jun 20;111(22):8131-6. Epub 2014 May 20.

Microfluidics Systems Biology Lab, Institute of Molecular and Cell Biology, Agency for Science, Technology and Research, Singapore 138673;

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http://dx.doi.org/10.1073/pnas.1401532111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4050588PMC
June 2014

Reconstructing lineage hierarchies of the distal lung epithelium using single-cell RNA-seq.

Nature 2014 May 13;509(7500):371-5. Epub 2014 Apr 13.

Departments of Bioengineering and Applied Physics, Stanford University School of Medicine and Howard Hughes Medical Institute, Stanford, California 94305, USA.

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http://dx.doi.org/10.1038/nature13173DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4145853PMC
May 2014

Correlation of gene expression and genome mutation in single B-cells.

PLoS One 2013 28;8(6):e67624. Epub 2013 Jun 28.

Biophysics Program, Stanford University, Stanford, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0067624PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3695916PMC
April 2014

Cartography of neurexin alternative splicing mapped by single-molecule long-read mRNA sequencing.

Proc Natl Acad Sci U S A 2014 Apr 17;111(13):E1291-9. Epub 2014 Mar 17.

Departments of Bioengineering and Molecular and Cellular Physiology, School of Medicine, Department of Applied Physics, and Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305.

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http://thebigone.stanford.edu/papers/Treutlein_cartography_P
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http://www.pnas.org/lookup/doi/10.1073/pnas.1403244111
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http://dx.doi.org/10.1073/pnas.1403244111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3977267PMC
April 2014

The promise and challenge of high-throughput sequencing of the antibody repertoire.

Nat Biotechnol 2014 Feb 19;32(2):158-68. Epub 2014 Jan 19.

1] Department of Bioengineering, Stanford University, Stanford, California, USA. [2] Howard Hughes Medical Institute, Stanford University, Stanford, California, USA. [3] Biophysics Graduate Program, Stanford University, Stanford, California, USA. [4] Department of Applied Physics, Stanford University, Stanford, California, USA.

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http://thebigone.stanford.edu/papers/Georgiou_promise_and_ch
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http://www.nature.com/doifinder/10.1038/nbt.2782
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http://dx.doi.org/10.1038/nbt.2782DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4113560PMC
February 2014

Quantitative assessment of single-cell RNA-sequencing methods.

Nat Methods 2014 Jan 20;11(1):41-6. Epub 2013 Oct 20.

1] Department of Bioengineering, Stanford University, Stanford, California, USA. [2] Howard Hughes Medical Institute, Stanford, California, USA. [3] Department of Applied Physics, Stanford University, Stanford, California, USA.

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http://dx.doi.org/10.1038/nmeth.2694DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4022966PMC
January 2014

Genetic measurement of memory B-cell recall using antibody repertoire sequencing.

Proc Natl Acad Sci U S A 2013 Aug 29;110(33):13463-8. Epub 2013 Jul 29.

Biophysics Graduate Program, Stanford University, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1073/pnas.1312146110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3746854PMC
August 2013

The genome sequence of the colonial chordate, Botryllus schlosseri.

Elife 2013 Jul 2;2:e00569. Epub 2013 Jul 2.

Department of Pathology , Institute for Stem Cell Biology and Regenerative Medicine, Stanford University , Stanford , United States ; Hopkins Marine Station , Stanford University , Pacific Grove , United States.

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http://dx.doi.org/10.7554/eLife.00569DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3699833PMC
July 2013

Microfluidic serial digital to analog pressure converter for arbitrary pressure generation and contamination-free flow control.

Lab Chip 2013 May 25;13(10):1911-8. Epub 2013 Mar 25.

Departments of Bioengineering and Applied Physics, Stanford University and Howard Hughes Medical Institute, Stanford, California 94305, USA.

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http://dx.doi.org/10.1039/c3lc41394bDOI Listing
May 2013