Latest Research

  • Article | | open

    Draft genome, 994 re-sequenced lines and GWAS for yield-traits provide a resource of genetics and genomics tools for pearl millet researchers and breeders.

    • Rajeev K Varshney
    • , Chengcheng Shi
    • , Mahendar Thudi
    • , Cedric Mariac
    • , Jason Wallace
    • , Peng Qi
    • , He Zhang
    • , Yusheng Zhao
    • , Xiyin Wang
    • , Abhishek Rathore
    • , Rakesh K Srivastava
    • , Annapurna Chitikineni
    • , Guangyi Fan
    • , Prasad Bajaj
    • , Somashekhar Punnuri
    • , S K Gupta
    • , Hao Wang
    • , Yong Jiang
    • , Marie Couderc
    • , Mohan A V S K Katta
    • , Dev R Paudel
    • , K D Mungra
    • , Wenbin Chen
    • , Karen R Harris-Shultz
    • , Vanika Garg
    • , Neetin Desai
    • , Dadakhalandar Doddamani
    • , Ndjido Ardo Kane
    • , Joann A Conner
    • , Arindam Ghatak
    • , Palak Chaturvedi
    • , Sabarinath Subramaniam
    • , Om Parkash Yadav
    • , Cécile Berthouly-Salazar
    • , Falalou Hamidou
    • , Jianping Wang
    • , Xinming Liang
    • , Jérémy Clotault
    • , Hari D Upadhyaya
    • , Philippe Cubry
    • , Bénédicte Rhoné
    • , Mame Codou Gueye
    • , Ramanjulu Sunkar
    • , Christian Dupuy
    • , Francesca Sparvoli
    • , Shifeng Cheng
    • , R S Mahala
    • , Bharat Singh
    • , Rattan S Yadav
    • , Eric Lyons
    • , Swapan K Datta
    • , C Tom Hash
    • , Katrien M Devos
    • , Edward Buckler
    • , Jeffrey L Bennetzen
    • , Andrew H Paterson
    • , Peggy Ozias-Akins
    • , Stefania Grando
    • , Jun Wang
    • , Trilochan Mohapatra
    • , Wolfram Weckwerth
    • , Jochen C Reif
    • , Xin Liu
    • , Yves Vigouroux
    •  & Xun Xu
  • Review |

    The promises and potential pitfalls of shotgun metagenomics, from experimental design to computational analyses, are reviewed.

    • Christopher Quince
    • , Alan W Walker
    • , Jared T Simpson
    • , Nicholas J Loman
    •  & Nicola Segata
  • Letter |

    An in-droplet immunoassay enables determination of the rate and affinity of secreted antigen-specific antibodies at the single-cell level.

    • Klaus Eyer
    • , Raphaël C L Doineau
    • , Carlos E Castrillon
    • , Luis Briseño-Roa
    • , Vera Menrath
    • , Guillaume Mottet
    • , Patrick England
    • , Alexei Godina
    • , Elodie Brient-Litzler
    • , Clément Nizak
    • , Allan Jensen
    • , Andrew D Griffiths
    • , Jérôme Bibette
    • , Pierre Bruhns
    •  & Jean Baudry
  • Article |

    New computational tools reveal the contribution of microsatellite insertions and deletions to the mutational landscape in human cancer.

    • Yosef E Maruvka
    • , Kent W Mouw
    • , Rosa Karlic
    • , Prasanna Parasuraman
    • , Atanas Kamburov
    • , Paz Polak
    • , Nicholas J Haradhvala
    • , Julian M Hess
    • , Esther Rheinbay
    • , Yehuda Brody
    • , Amnon Koren
    • , Lior Z Braunstein
    • , Alan D'Andrea
    • , Michael S Lawrence
    • , Adam Bass
    • , Andre Bernards
    • , Franziska Michor
    •  & Gad Getz
  • Brief Communication |

    High-throughput quantification of protein and gene expression in single cells is achieved using DNA-barcoded antibodies.

    • Vanessa M Peterson
    • , Kelvin Xi Zhang
    • , Namit Kumar
    • , Jerelyn Wong
    • , Lixia Li
    • , Douglas C Wilson
    • , Renee Moore
    • , Terrill K McClanahan
    • , Svetlana Sadekova
    •  & Joel A Klappenbach
  • Resource |

    An atlas of microRNA expression patterns and regulators is produced by deep sequencing of short RNAs in human and mouse cells.

    • Derek de Rie
    • , Imad Abugessaisa
    • , Tanvir Alam
    • , Erik Arner
    • , Peter Arner
    • , Haitham Ashoor
    • , Gaby Åström
    • , Magda Babina
    • , Nicolas Bertin
    • , A Maxwell Burroughs
    • , Ailsa J Carlisle
    • , Carsten O Daub
    • , Michael Detmar
    • , Ruslan Deviatiiarov
    • , Alexandre Fort
    • , Claudia Gebhard
    • , Daniel Goldowitz
    • , Sven Guhl
    • , Thomas J Ha
    • , Jayson Harshbarger
    • , Akira Hasegawa
    • , Kosuke Hashimoto
    • , Meenhard Herlyn
    • , Peter Heutink
    • , Kelly J Hitchens
    • , Chung Chau Hon
    • , Edward Huang
    • , Yuri Ishizu
    • , Chieko Kai
    • , Takeya Kasukawa
    • , Peter Klinken
    • , Timo Lassmann
    • , Charles-Henri Lecellier
    • , Weonju Lee
    • , Marina Lizio
    • , Vsevolod Makeev
    • , Anthony Mathelier
    • , Yulia A Medvedeva
    • , Niklas Mejhert
    • , Christopher J Mungall
    • , Shohei Noma
    • , Mitsuhiro Ohshima
    • , Mariko Okada-Hatakeyama
    • , Helena Persson
    • , Patrizia Rizzu
    • , Filip Roudnicky
    • , Pål Sætrom
    • , Hiroki Sato
    • , Jessica Severin
    • , Jay W Shin
    • , Rolf K Swoboda
    • , Hiroshi Tarui
    • , Hiroo Toyoda
    • , Kristoffer Vitting-Seerup
    • , Louise Winteringham
    • , Yoko Yamaguchi
    • , Kayoko Yasuzawa
    • , Misako Yoneda
    • , Noriko Yumoto
    • , Susan Zabierowski
    • , Peter G Zhang
    • , Christine A Wells
    • , Kim M Summers
    • , Hideya Kawaji
    • , Albin Sandelin
    • , Michael Rehli
    • , The FANTOM Consortium
    • , Yoshihide Hayashizaki
    • , Piero Carninci
    • , Alistair R R Forrest
    •  & Michiel J L de Hoon
  • Resource |

    B-cell VH region repertoire sequencing of eight anatomical sites in six human donors reveals distinct networks of clone distribution.

    • Wenzhao Meng
    • , Bochao Zhang
    • , Gregory W Schwartz
    • , Aaron M Rosenfeld
    • , Daqiu Ren
    • , Joseph J C Thome
    • , Dustin J Carpenter
    • , Nobuhide Matsuoka
    • , Harvey Lerner
    • , Amy L Friedman
    • , Tomer Granot
    • , Donna L Farber
    • , Mark J Shlomchik
    • , Uri Hershberg
    •  & Eline T Luning Prak
  • Article |

    A scalable chemical method to control phosphorothioate chirality demonstrates its impact on the efficacy of antisense oligonucleotides.

    • Naoki Iwamoto
    • , David C D Butler
    • , Nenad Svrzikapa
    • , Susovan Mohapatra
    • , Ivan Zlatev
    • , Dinah W Y Sah
    • , Meena
    • , Stephany M Standley
    • , Genliang Lu
    • , Luciano H Apponi
    • , Maria Frank-Kamenetsky
    • , Jason Jingxin Zhang
    • , Chandra Vargeese
    •  & Gregory L Verdine
  • Perspective | | open

    Standards for sequencing the microbial 'uncultivated majority', namely bacterial and archaeal single-cell genome sequences, and genome sequences from metagenomic datasets, are proposed.

    • Robert M Bowers
    • , Nikos C Kyrpides
    • , Ramunas Stepanauskas
    • , Miranda Harmon-Smith
    • , Devin Doud
    • , T B K Reddy
    • , Frederik Schulz
    • , Jessica Jarett
    • , Adam R Rivers
    • , Emiley A Eloe-Fadrosh
    • , Susannah G Tringe
    • , Natalia N Ivanova
    • , Alex Copeland
    • , Alicia Clum
    • , Eric D Becraft
    • , Rex R Malmstrom
    • , Bruce Birren
    • , Mircea Podar
    • , Peer Bork
    • , George M Weinstock
    • , George M Garrity
    • , Jeremy A Dodsworth
    • , Shibu Yooseph
    • , Granger Sutton
    • , Frank O Glöckner
    • , Jack A Gilbert
    • , William C Nelson
    • , Steven J Hallam
    • , Sean P Jungbluth
    • , Thijs J G Ettema
    • , Scott Tighe
    • , Konstantinos T Konstantinidis
    • , Wen-Tso Liu
    • , Brett J Baker
    • , Thomas Rattei
    • , Jonathan A Eisen
    • , Brian Hedlund
    • , Katherine D McMahon
    • , Noah Fierer
    • , Rob Knight
    • , Rob Finn
    • , Guy Cochrane
    • , Ilene Karsch-Mizrachi
    • , Gene W Tyson
    • , Christian Rinke
    • , The Genome Standards Consortium
    • , Nikos C Kyrpides
    • , Lynn Schriml
    • , George M Garrity
    • , Philip Hugenholtz
    • , Granger Sutton
    • , Pelin Yilmaz
    • , Folker Meyer
    • , Frank O Glöckner
    • , Jack A Gilbert
    • , Rob Knight
    • , Rob Finn
    • , Guy Cochrane
    • , Ilene Karsch-Mizrachi
    • , Alla Lapidus
    • , Folker Meyer
    • , Pelin Yilmaz
    • , Donovan H Parks
    • , A M Eren
    • , Lynn Schriml
    • , Jillian F Banfield
    • , Philip Hugenholtz
    •  & Tanja Woyke
  • Article |

    Expansion microscopy, a technique for super-resolution imaging, is extended to clinical human tissue samples that are formalin fixed, paraffin embedded, stained and/or fresh frozen.

    • Yongxin Zhao
    • , Octavian Bucur
    • , Humayun Irshad
    • , Fei Chen
    • , Astrid Weins
    • , Andreea L Stancu
    • , Eun-Young Oh
    • , Marcello DiStasio
    • , Vanda Torous
    • , Benjamin Glass
    • , Isaac E Stillman
    • , Stuart J Schnitt
    • , Andrew H Beck
    •  & Edward S Boyden
  • Article |

    Longitudinal clinical and multi-omics data from 108 healthy individuals are analyzed to identify putative biomarkers and diagnostics of early disease states.

    • Nathan D Price
    • , Andrew T Magis
    • , John C Earls
    • , Gustavo Glusman
    • , Roie Levy
    • , Christopher Lausted
    • , Daniel T McDonald
    • , Ulrike Kusebauch
    • , Christopher L Moss
    • , Yong Zhou
    • , Shizhen Qin
    • , Robert L Moritz
    • , Kristin Brogaard
    • , Gilbert S Omenn
    • , Jennifer C Lovejoy
    •  & Leroy Hood
  • Article |

    Super-resolution imaging of the dynamics of organelle structures in live cells is facilitated by blinking, far-red dyes.

    • Hideo Takakura
    • , Yongdeng Zhang
    • , Roman S Erdmann
    • , Alexander D Thompson
    • , Yu Lin
    • , Brian McNellis
    • , Felix Rivera-Molina
    • , Shin-nosuke Uno
    • , Mako Kamiya
    • , Yasuteru Urano
    • , James E Rothman
    • , Joerg Bewersdorf
    • , Alanna Schepartz
    •  & Derek Toomre
  • Letter |

    Haplotype information for whole genomes is rapidly generated with a single-tube method.

    • Fan Zhang
    • , Lena Christiansen
    • , Jerushah Thomas
    • , Dmitry Pokholok
    • , Ros Jackson
    • , Natalie Morrell
    • , Yannan Zhao
    • , Melissa Wiley
    • , Emily Welch
    • , Erich Jaeger
    • , Ana Granat
    • , Steven J Norberg
    • , Aaron Halpern
    • , Maria C Rogert
    • , Mostafa Ronaghi
    • , Jay Shendure
    • , Niall Gormley
    • , Kevin L Gunderson
    •  & Frank J Steemers
  • Article |

    Lipid production in the oleaginous microalga Nannocholoropsis gaditana is doubled by decreasing the expression of a transcriptional regulator identified through a CRISPR–Cas9 reverse-genetics approach.

    • Imad Ajjawi
    • , John Verruto
    • , Moena Aqui
    • , Leah B Soriaga
    • , Jennifer Coppersmith
    • , Kathleen Kwok
    • , Luke Peach
    • , Elizabeth Orchard
    • , Ryan Kalb
    • , Weidong Xu
    • , Tom J Carlson
    • , Kristie Francis
    • , Katie Konigsfeld
    • , Judit Bartalis
    • , Andrew Schultz
    • , William Lambert
    • , Ariel S Schwartz
    • , Robert Brown
    •  & Eric R Moellering
  • Article |

    Detection of post-translational modifications by mass spectrometry is enhanced with an analytic method for data-independent acquisition proteomics.

    • George Rosenberger
    • , Yansheng Liu
    • , Hannes L Röst
    • , Christina Ludwig
    • , Alfonso Buil
    • , Ariel Bensimon
    • , Martin Soste
    • , Tim D Spector
    • , Emmanouil T Dermitzakis
    • , Ben C Collins
    • , Lars Malmström
    •  & Ruedi Aebersold