Jay A. Shendure: search on Z-Library

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1

DNA sequencing at 40: past, present and future

Shendure, Jay, Balasubramanian, Shankar, Church, George M., Gilbert, Walter, Rogers, Jane, Schloss, Jeffery A., Waterston, Robert H.

Journal:

Year:

2017

Language:

english

File:

PDF, 685 KB

english, 2017

2

The single-cell transcriptional landscape of mammalian organogenesis

Cao, Junyue, Spielmann, Malte, Qiu, Xiaojie, Huang, Xingfan, Ibrahim, Daniel M., Hill, Andrew J., Zhang, Fan, Mundlos, Stefan, Christiansen, Lena, Steemers, Frank J., Trapnell, Cole, Shendure, Jay

Journal:

Year:

2019

Language:

english

File:

PDF, 26.30 MB

english, 2019

3

Classification and characterization of microsatellite instability across 18 cancer types

Hause, Ronald J, Pritchard, Colin C, Shendure, Jay, Salipante, Stephen J

Journal:

Nature Medicine

Year:

2016

Language:

english

File:

PDF, 1.68 MB

english, 2016

4

Target-enrichment strategies for next-generation sequencing

Mamanova, Lira, Coffey, Alison J, Scott, Carol E, Kozarewa, Iwanka, Turner, Emily H, Kumar, Akash, Howard, Eleanor, Shendure, Jay, Turner, Daniel J

Journal:

Year:

2010

Language:

english

File:

PDF, 2.31 MB

english, 2010

5

Needles in stacks of needles: finding disease-causal variants in a wealth of genomic data

Cooper, Gregory M., Shendure, Jay

Journal:

Nature Reviews Genetics

Year:

2011

Language:

english

File:

PDF, 1.03 MB

english, 2011

6

Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain

Raj, Bushra, Wagner, Daniel E, McKenna, Aaron, Pandey, Shristi, Klein, Allon M, Shendure, Jay, Gagnon, James A, Schier, Alexander F

Journal:

Nature Biotechnology

Year:

2018

Language:

english

File:

PDF, 6.37 MB

english, 2018

7

CADD: predicting the deleteriousness of variants throughout the human genome

Rentzsch, Philipp, Witten, Daniela, Cooper, Gregory M, Shendure, Jay, Kircher, Martin

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 2.56 MB

english, 2018

8

Decoding long nanopore sequencing reads of natural DNA

Laszlo, Andrew H, Derrington, Ian M, Ross, Brian C, Brinkerhoff, Henry, Adey, Andrew, Nova, Ian C, Craig, Jonathan M, Langford, Kyle W, Samson, Jenny Mae, Daza, Riza, Doering, Kenji, Shendure, Jay, Gu

Journal:

Nature Biotechnology

Year:

2014

Language:

english

File:

PDF, 1.74 MB

english, 2014

9

Next-generation DNA sequencing

Shendure, Jay, Ji, Hanlee

Journal:

Nature Biotechnology

Year:

2008

Language:

english

File:

PDF, 694 KB

english, 2008

10

Haplotype-resolved whole-genome sequencing by contiguity-preserving transposition and combinatorial indexing

Amini, Sasan, Pushkarev, Dmitry, Christiansen, Lena, Kostem, Emrah, Royce, Tom, Turk, Casey, Pignatelli, Natasha, Adey, Andrew, Kitzman, Jacob O, Vijayan, Kandaswamy, Ronaghi, Mostafa, Shendure, Jay,

Journal:

Nature Genetics

Year:

2014

Language:

english

File:

PDF, 1.46 MB

english, 2014

11

Analysis of 6,515 exomes reveals the recent origin of most human protein-coding variants

Fu, Wenqing, O’Connor, Timothy D., Jun, Goo, Kang, Hyun Min, Abecasis, Goncalo, Leal, Suzanne M., Gabriel, Stacey, Altshuler, David, Shendure, Jay, Nickerson, Deborah A., Bamshad, Michael J., NHLBI Ex

Journal:

Year:

2012

Language:

english

File:

PDF, 778 KB

english, 2012

12

Supervised classification enables rapid annotation of cell atlases

Pliner, Hannah A., Shendure, Jay, Trapnell, Cole

Journal:

Year:

2019

Language:

english

File:

PDF, 1.41 MB

english, 2019

13

Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions

Burton, Joshua N, Adey, Andrew, Patwardhan, Rupali P, Qiu, Ruolan, Kitzman, Jacob O, Shendure, Jay

Journal:

Nature Biotechnology

Year:

2013

Language:

english

File:

PDF, 1001 KB

english, 2013

14

Genetic Variation Meets Replication Origins

Hause, Ronald J., Shendure, Jay

Journal:

Year:

2014

Language:

english

File:

PDF, 326 KB

english, 2014

15

Haplotype-resolved genome sequencing: experimental methods and applications

Snyder, Matthew W., Adey, Andrew, Kitzman, Jacob O., Shendure, Jay

Journal:

Nature Reviews Genetics

Year:

2015

Language:

english

File:

PDF, 1.63 MB

english, 2015

16

Exome sequencing as a tool for Mendelian disease gene discovery

Bamshad, Michael J., Ng, Sarah B., Bigham, Abigail W., Tabor, Holly K., Emond, Mary J., Nickerson, Deborah A., Shendure, Jay

Journal:

Nature Reviews Genetics

Year:

2011

Language:

english

File:

PDF, 858 KB

english, 2011

17

A de novo convergence of autism genetics and molecular neuroscience

Krumm, Niklas, O’Roak, Brian J., Shendure, Jay, Eichler, Evan E.

Journal:

Trends in Neurosciences

Year:

2014

Language:

english

File:

PDF, 1.11 MB

english, 2014

18

Publisher Correction: DNA sequencing at 40: past, present and future

Shendure, Jay, Balasubramanian, Shankar, Church, George M., Gilbert, Walter, Rogers, Jane, Schloss, Jeffery A., Waterston, Robert H.

Journal:

Year:

2019

File:

PDF, 307 KB

2019

19

Tagmentation-based whole-genome bisulfite sequencing

Wang, Qi, Gu, Lei, Adey, Andrew, Radlwimmer, Bernhard, Wang, Wei, Hovestadt, Volker, Bähr, Marion, Wolf, Stephan, Shendure, Jay, Eils, Roland, Plass, Christoph, Weichenhan, Dieter

Journal:

Nature Protocols

Year:

2013

Language:

english

File:

PDF, 789 KB

english, 2013

20

Cell-free DNA Comprises an In Vivo Nucleosome Footprint that Informs Its Tissues-Of-Origin

Snyder, Matthew W., Kircher, Martin, Hill, Andrew J., Daza, Riza M., Shendure, Jay

Journal:

Year:

2016

Language:

english

File:

PDF, 3.04 MB

english, 2016

21

Corrigendum: Classification and characterization of microsatellite instability across 18 cancer types

Hause, Ronald J, Pritchard, Colin C, Shendure, Jay, Salipante, Stephen J

Journal:

Nature Medicine

Year:

2018

Language:

english

File:

PDF, 54 KB

english, 2018

22

A general framework for estimating the relative pathogenicity of human genetic variants

Kircher, Martin, Witten, Daniela M, Jain, Preti, O'Roak, Brian J, Cooper, Gregory M, Shendure, Jay

Journal:

Nature Genetics

Year:

2014

Language:

english

File:

PDF, 649 KB

english, 2014

23

Haplotype-resolved genome sequencing of a Gujarati Indian individual

Kitzman, Jacob O, MacKenzie, Alexandra P, Adey, Andrew, Hiatt, Joseph B, Patwardhan, Rupali P, Sudmant, Peter H, Ng, Sarah B, Alkan, Can, Qiu, Ruolan, Eichler, Evan E, Shendure, Jay

Journal:

Nature Biotechnology

Year:

2011

Language:

english

File:

PDF, 128 KB

english, 2011

24

Learning the Sequence Determinants of Alternative Splicing from Millions of Random Sequences

Rosenberg, Alexander B., Patwardhan, Rupali P., Shendure, Jay, Seelig, Georg

Journal:

Year:

2015

Language:

english

File:

PDF, 4.79 MB

english, 2015

25

The expanding scope of DNA sequencing

Shendure, Jay, Aiden, Erez Lieberman

Journal:

Nature Biotechnology

Year:

2012

Language:

english

File:

PDF, 1.05 MB

english, 2012

26

Identification of sex–specific quantitative trait loci controlling alcohol preference in C57BL/6 mice

Melo, Justine A., Shendure, Jay, Pociask, Kara, Silver, Lee M.

Journal:

Nature Genetics

Year:

1996

File:

PDF, 764 KB

1996

27

Massively parallel exon capture and library-free resequencing across 16 genomes

Turner, Emily H, Lee, Choli, Ng, Sarah B, Nickerson, Deborah A, Shendure, Jay

Journal:

Year:

2009

Language:

english

File:

PDF, 657 KB

english, 2009

28

High-throughput Screening for CD8+ T Cell Epitopes Targeted in Type 1 Diabetes

Brian Hondowicz, Katharine Schwedhelm, Arnold Kas, Michael Tasch, Nirasha Ramchurren, Nathan Standifer, Srinath Sanda, Crystal Rawlings, Jay Shendure, Brad Stone

Journal:

Clinical Immunology

Year:

2010

Language:

english

File:

PDF, 41 KB

english, 2010

29

A Molecular Pathway Including Id2, Tbx5, and Nkx2-5 Required for Cardiac Conduction System Development

Ivan P.G. Moskowitz, Jae B. Kim, Meredith L. Moore, Cordula M. Wolf, Michael A. Peterson, Jay Shendure, Marcelo A. Nobrega, Yoshifumi Yokota, Charles Berul, Seigo Izumo, J.G. Seidman, Christine E. Sei

Journal:

Year:

2007

Language:

english

File:

PDF, 2.91 MB

english, 2007

30

Evidence for compensatory upregulation of expressed X-linked genes in mammals, Caenorhabditis elegans and Drosophila melanogaster

Deng, Xinxian, Hiatt, Joseph B, Nguyen, Di Kim, Ercan, Sevinc, Sturgill, David, Hillier, LaDeana W, Schlesinger, Felix, Davis, Carrie A, Reinke, Valerie J, Gingeras, Thomas R, Shendure, Jay, Waterston

Journal:

Nature Genetics

Year:

2011

Language:

english

File:

PDF, 1.26 MB

english, 2011

31

App processing genes case-control screening and functional analysis in Alzheimer’s disease

Brkanac, Zoran, Rehker, Jan, Rodhe, Johanna, Nesbit, Ryan R., Raskind, Wendy, Shendure, Jay, Cruchaga, Carlos, Joseph, Bertrand

Journal:

Alzheimer's & Dementia

Year:

2015

Language:

english

File:

PDF, 52 KB

english, 2015

32

Corrigendum: A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity

Inoue, Fumitaka, Kircher, Martin, Martin, Beth, Cooper, Gregory M., Witten, Daniela M., McManus, Michael T., Ahituv, Nadav, Shendure, Jay

Journal:

Genome Research

Year:

2018

Language:

english

File:

PDF, 70 KB

english, 2018

33

Transcriptome-wide miR-155 Binding Map Reveals Widespread Noncanonical MicroRNA Targeting

Loeb, Gabriel B., Khan, Aly A., Canner, David, Hiatt, Joseph B., Shendure, Jay, Darnell, Robert B., Leslie, Christina S., Rudensky, Alexander Y.

Journal:

Year:

2012

Language:

english

File:

PDF, 2.07 MB

english, 2012

34

Rare-Variant Extensions of the Transmission Disequilibrium Test: Application to Autism Exome Sequence Data

He, Zongxiao, O’Roak, Brian J., Smith, Joshua D., Wang, Gao, Hooker, Stanley, Santos-Cortez, Regie Lyn P., Li, Biao, Kan, Mengyuan, Krumm, Nik, Nickerson, Deborah A., Shendure, Jay, Eichler, Evan E.,

Journal:

The American Journal of Human Genetics

Year:

2014

Language:

english

File:

PDF, 649 KB

english, 2014

35

A homozygous missense variant in type I keratin KRT25 causes autosomal recessive woolly hair

Ansar, Muhammad, Raza, Syed Irfan, Lee, Kwanghyuk, Irfanullah,, Shahi, Shamim, Acharya, Anushree, Dai, Hang, Smith, Joshua D, Shendure, Jay, Bamshad, Michael J, Nickerson, Deborah A, Santos-Cortez, R

Journal:

Journal of Medical Genetics

Year:

2015

Language:

english

File:

PDF, 976 KB

english, 2015

36

Using DNase Hi-C techniques to map global and local three-dimensional genome architecture at high resolution

Ma, Wenxiu, Ay, Ferhat, Lee, Choli, Gulsoy, Gunhan, Deng, Xinxian, Cook, Savannah, Hesson, Jennifer, Cavanaugh, Christopher, Ware, Carol B., Krumm, Anton, Shendure, Jay, Blau, C. Anthony, Disteche, Ch

Journal:

Year:

2018

Language:

english

File:

PDF, 1.61 MB

english, 2018

37

New insights into structural features and optimal detection of circulating tumor DNA determined by single-strand DNA analysis

Sanchez, Cynthia, Snyder, Matthew W., Tanos, Rita, Shendure, Jay, Thierry, Alain R.

Journal:

npj Genomic Medicine

Year:

2018

Language:

english

File:

PDF, 1.31 MB

english, 2018

38

Mechanisms of Interplay between Transcription Factors and the 3D Genome

Kim, Seungsoo, Shendure, Jay

Journal:

Year:

2019

File:

PDF, 1.21 MB

2019

39

Computational comparison of two draft sequences of the human genome

Aach, John, Bulyk, Martha L., Church, George M., Comander, Jason, Derti, Adnan, Shendure, Jay

Journal:

Year:

2001

Language:

english

File:

PDF, 193 KB

english, 2001

40

A suppressor screen in Mecp2 mutant mice implicates cholesterol metabolism in Rett syndrome

Buchovecky, Christie M, Turley, Stephen D, Brown, Hannah M, Kyle, Stephanie M, McDonald, Jeffrey G, Liu, Benny, Pieper, Andrew A, Huang, Wenhui, Katz, David M, Russell, David W, Shendure, Jay, Justice

Journal:

Nature Genetics

Year:

2013

Language:

english

File:

PDF, 831 KB

english, 2013

41

NIH Public Access

Elde, Nels C, Child, Stephanie J, Eickbush, Michael T, Kitzman, Jacob O, Kelsey, S, Shendure, Jay, Geballe, Adam P, Malik, Harmit S

Year:

2013

Language:

english

File:

PDF, 1.79 MB

english, 2013

42

On the design of CRISPR-based single-cell molecular screens

Hill, Andrew J, McFaline-Figueroa, José L, Starita, Lea M, Gasperini, Molly J, Matreyek, Kenneth A, Packer, Jonathan, Jackson, Dana, Shendure, Jay, Trapnell, Cole

Journal:

Year:

2018

Language:

english

File:

PDF, 1.26 MB

english, 2018

43

The single-cell transcriptional landscape of mammalian organogenesis

Cao, Junyue, Spielmann, Malte, Qiu, Xiaojie, Huang, Xingfan, Ibrahim, Daniel M., Hill, Andrew J., Zhang, Fan, Mundlos, Stefan, Christiansen, Lena, Steemers, Frank J., Trapnell, Cole, Shendure, Jay

Journal:

Year:

2019

File:

PDF, 26.30 MB

2019

44

Mutations in the translocon associated protein complex subunit SSR3 cause a novel Congenital Disorder of Glycosylation.

Ng, Bobby G., Lourenço, Charles Marques, Losfeld, Marie‐Estelle, Buckingham, Kati J., Kircher, Martin, Nickerson, Deborah A., Shendure, Jay, Bamshad, Michael J., Freeze, Hudson H.

Journal:

Journal of Inherited Metabolic Disease

Year:

2019

Language:

english

File:

PDF, 1007 KB

english, 2019

45

Long-range polony haplotyping of individual human chromosome molecules

Zhang, Kun, Zhu, Jun, Shendure, Jay, Porreca, Gregory J, Aach, John D, Mitra, Robi D, Church, George M

Journal:

Nature Genetics

Year:

2006

Language:

english

File:

PDF, 327 KB

english, 2006

46

Informed consent for whole genome sequencing: A qualitative analysis of participant expectations and perceptions of risks, benefits, and harms

Holly K. Tabor, Jacquie Stock, Tracy Brazg, Margaret J. McMillin, Karin M. Dent, Joon-Ho Yu, Jay Shendure, Michael J. Bamshad

Journal:

American Journal of Medical Genetics Part A

Year:

2012

Language:

english

File:

PDF, 132 KB

english, 2012

47

Noninvasive fetal genome sequencing: a primer

Snyder, Matthew W., Simmons, LaVone E., Kitzman, Jacob O., Santillan, Donna A., Santillan, Mark K., Gammill, Hilary S., Shendure, Jay

Journal:

Prenatal Diagnosis

Year:

2013

Language:

english

File:

PDF, 1.44 MB

english, 2013

48

The haplotype-resolved genome and epigenome of the aneuploid HeLa cancer cell line

Adey, Andrew, Burton, Joshua N., Kitzman, Jacob O., Hiatt, Joseph B., Lewis, Alexandra P., Martin, Beth K., Qiu, Ruolan, Lee, Choli, Shendure, Jay

Journal:

Year:

2013

Language:

english

File:

PDF, 869 KB

english, 2013

49

Activation of a cryptic splice site in the mitochondrial elongation factor GFM1 causes combined OXPHOS deficiency

Simon, Mariella T., Ng, Bobby G., Friederich, Marisa W., Wang, Raymond Y., Boyer, Monica, Kircher, Martin, Collard, Renata, Buckingham, Kati J., Chang, Richard, Shendure, Jay, Nickerson, Deborah A., B

Journal:

Year:

2017

Language:

english

File:

PDF, 789 KB

english, 2017

50

Correction: A Year of Infection in the Intensive Care Unit: Prospective Whole Genome Sequencing of Bacterial Clinical Isolates Reveals Cryptic Transmissions and Novel Microbiota

Roach, David J., Burton, Joshua N., Lee, Choli, Stackhouse, Bethany, Butler-Wu, Susan M., Cookson, Brad T., Shendure, Jay, Salipante, Stephen J.

Journal:

Year:

2017

Language:

english

File:

PDF, 252 KB

english, 2017

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