Information recovery from low coverage whole-genome bisulfite sequencing.

abstract：:The predicted 80 open reading frames (ORFs) of herpes simplex virus 1 (HSV-1) have been intensively studied for decades. Here, we unravel the complete viral transcriptome and translatome during lytic infection with base-pair resolution by computational integration of multi-omics data. We identify a total of 201 transc...

journal_title：Nature communications

authors： Whisnant AW,Jürges CS,Hennig T,Wyler E,Prusty B,Rutkowski AJ,L'hernault A,Djakovic L,Göbel M,Döring K,Menegatti J,Antrobus R,Matheson NJ,Künzig FWH,Mastrobuoni G,Bielow C,Kempa S,Liang C,Dandekar T,Zimmer R,Landth

更新日期：2020-04-27 00:00:00

abstract：:Moiré superlattices (MSLs) are modulated structures produced from homogeneous or heterogeneous 2D layers stacked with a twist angle and/or lattice mismatch. Expanding the range of available materials, methods for fabricating MSL, and realization of unique emergent properties are key challenges. Here we report a facile...

journal_title：Nature communications

authors： Liu L,Sun Y,Cui X,Qi K,He X,Bao Q,Ma W,Lu J,Fang H,Zhang P,Zheng L,Yu L,Singh DJ,Xiong Q,Zhang L,Zheng W

更新日期：2019-10-02 00:00:00

abstract：:Flexible barrier films preventing permeation of gases and moistures are important for many industries ranging from food to medical and from chemical to electronic. From this perspective, graphene has recently attracted particular interest because its defect-free monolayers are impermeable to all atoms and molecules. H...

journal_title：Nature communications

authors： Su Y,Kravets VG,Wong SL,Waters J,Geim AK,Nair RR

更新日期：2014-09-11 00:00:00

abstract：:The bio-integrated electronics industry is booming and becoming more integrated with biological tissues. To successfully integrate with the soft tissues of the body (eg. skin), the material must possess many of the same properties including compliance, toughness, elasticity, and tear resistance. In this work, we prepa...

journal_title：Nature communications

authors： Chen S,Sun L,Zhou X,Guo Y,Song J,Qian S,Liu Z,Guan Q,Meade Jeffries E,Liu W,Wang Y,He C,You Z

更新日期：2020-02-27 00:00:00

abstract：:The bundle of stereocilia on inner ear hair cells responds to subnanometer deflections produced by sound or head movement. Stereocilia are interconnected by a variety of links and also carry an electron-dense surface coat. The coat may contribute to stereocilia adhesion or protect from stereocilia fusion, but its mole...

journal_title：Nature communications

authors： Wu X,Ivanchenko MV,Al Jandal H,Cicconet M,Indzhykulian AA,Corey DP

更新日期：2019-08-23 00:00:00

abstract：:Transgenerational epigenetic inheritance refers to the transmission of epigenetic information through the germline. While it has been observed in plants, nematodes and fruit flies, its occurrence in mammals-and humans in particular-is the matter of controversial debate, mostly because the study of transgenerational ep...

journal_title：Nature communications

authors： Horsthemke B

更新日期：2018-07-30 00:00:00

abstract：:Non-alcoholic fatty liver disease (NAFLD) is the hepatic manifestation of the metabolic syndrome that elevates the risk of hepatocellular carcinoma (HCC). Although alteration of lipid metabolism has been increasingly recognized as a hallmark of cancer cells, the deregulated metabolic modulation of HCC cells in the NAF...

journal_title：Nature communications

authors： Tian Y,Yang B,Qiu W,Hao Y,Zhang Z,Yang B,Li N,Cheng S,Lin Z,Rui YC,Cheung OKW,Yang W,Wu WKK,Cheung YS,Lai PBS,Luo J,Sung JJY,Chen R,Wang HY,Cheng ASL,Yang P

更新日期：2019-07-29 00:00:00

abstract：:Phylogenetic trees are essential for studying biology, but their reproducibility under identical parameter settings remains unexplored. Here, we find that 3515 (18.11%) IQ-TREE-inferred and 1813 (9.34%) RAxML-NG-inferred maximum likelihood (ML) gene trees are topologically irreproducible when executing two replicates ...

journal_title：Nature communications

authors： Shen XX,Li Y,Hittinger CT,Chen XX,Rokas A

更新日期：2020-11-30 00:00:00

abstract：:Charge/discharge of lithium-ion battery cathode material LiFePO4 is mediated by the structure and properties of the interface between delithiated and lithiated phases. Direct observations of the interface in a partially delithiated single crystal as a function of time using scanning transmission electron microscopy an...

journal_title：Nature communications

authors： Kobayashi S,Kuwabara A,Fisher CAJ,Ukyo Y,Ikuhara Y

更新日期：2018-07-20 00:00:00

abstract：:Chromothripsis is a recently identified mutational phenomenon, by which a presumably single catastrophic event generates extensive genomic rearrangements of one or a few chromosome(s). Considered as an early event in tumour development, this form of genome instability plays a prominent role in tumour onset. Chromothri...

journal_title：Nature communications

authors： Voronina N,Wong JKL,Hübschmann D,Hlevnjak M,Uhrig S,Heilig CE,Horak P,Kreutzfeldt S,Mock A,Stenzinger A,Hutter B,Fröhlich M,Brors B,Jahn A,Klink B,Gieldon L,Sieverling L,Feuerbach L,Chudasama P,Beck K,Kroiss M,H

更新日期：2020-05-08 00:00:00

abstract：:The search for two-dimensional quantum spin liquids, exotic magnetic states remaining disordered down to zero temperature, has been a great challenge in frustrated magnetism over the last few decades. Recently, evidence for fractionalized excitations, called spinons, emerging from these states has been observed in kag...

journal_title：Nature communications

authors： Lhotel E,Petit S,Ciomaga Hatnean M,Ollivier J,Mutka H,Ressouche E,Lees MR,Balakrishnan G

更新日期：2018-09-17 00:00:00

abstract：:New exotic phenomena have recently been discovered in oxides of paramagnetic Ir(4+) ions, widely known as 'iridates'. Their remarkable properties originate from concerted effects of the crystal field, magnetic interactions and strong spin-orbit coupling, characteristic of 5d metal ions. Despite numerous experimental r...

journal_title：Nature communications

authors： Pedersen KS,Bendix J,Tressaud A,Durand E,Weihe H,Salman Z,Morsing TJ,Woodruff DN,Lan Y,Wernsdorfer W,Mathonière C,Piligkos S,Klokishner SI,Ostrovsky S,Ollefs K,Wilhelm F,Rogalev A,Clérac R

更新日期：2016-07-20 00:00:00

abstract：:The separation of immiscible liquids has significant implications for magma evolution and the formation of magmatic ore deposits. We combine high-resolution imaging and electron probe microanalysis with the first use of atom probe tomography on tholeiitic basaltic glass from Hawaii, the Snake River Plain, and Iceland,...

journal_title：Nature communications

authors： Honour VC,Holness MB,Charlier B,Piazolo SC,Namur O,Prosa TJ,Martin I,Helz RT,Maclennan J,Jean MM

更新日期：2019-10-23 00:00:00

abstract：:Pupylation is a posttranslational protein modification occurring in mycobacteria and other actinobacteria that is functionally analogous to ubiquitination. Here we report the crystal structures of the modification enzymes involved in this pathway, the prokaryotic ubiquitin-like protein (Pup) ligase PafA and the depupy...

journal_title：Nature communications

authors： Özcelik D,Barandun J,Schmitz N,Sutter M,Guth E,Damberger FF,Allain FH,Ban N,Weber-Ban E

更新日期：2012-01-01 00:00:00

abstract：:Optical tracking is often combined with conventional flat panel solar cells to maximize electrical power generation over the course of a day. However, conventional trackers are complex and often require costly and cumbersome structural components to support system weight. Here we use kirigami (the art of paper cutting...

journal_title：Nature communications

authors： Lamoureux A,Lee K,Shlian M,Forrest SR,Shtein M

更新日期：2015-09-08 00:00:00

abstract：:Spinel transition metal oxides (TMOs) have emerged as promising anode materials for lithium-ion batteries. It has been shown that reducing their particle size to nanoscale dimensions benefits overall electrochemical performance. Here, we use in situ transmission electron microscopy to probe the lithiation behavior of ...

journal_title：Nature communications

authors： Li J,Meng Q,Zhang Y,Peng L,Yu G,Marschilok AC,Wu L,Su D,Takeuchi KJ,Takeuchi ES,Zhu Y,Stach EA

更新日期：2019-01-09 00:00:00

abstract：:Self-assembly of small molecules in water to form nanofibres, besides generating sophisticated biomaterials, promises a simple system inside cells for regulating cellular processes. But lack of a convenient approach for studying the self-assembly of small molecules inside cells hinders the development of such systems....

journal_title：Nature communications

authors： Gao Y,Shi J,Yuan D,Xu B

更新日期：2012-01-01 00:00:00

abstract：:Recent studies suggest that attention samples space rhythmically through oscillatory interactions in the frontoparietal network. How these attentional fluctuations coincide with spatial exploration/displacement and exploitation/selection by a dynamic attentional spotlight under top-down control is unclear. Here, we sh...

journal_title：Nature communications

authors： Gaillard C,Ben Hadj Hassen S,Di Bello F,Bihan-Poudec Y,VanRullen R,Ben Hamed S

更新日期：2020-02-17 00:00:00

abstract：:Recent advances in nonlinear optics have revolutionized integrated photonics, providing on-chip solutions to a wide range of new applications. Currently, state of the art integrated nonlinear photonic devices are mainly based on dielectric material platforms, such as Si3N4 and SiO2. While semiconductor materials featu...

journal_title：Nature communications

authors： Chang L,Xie W,Shu H,Yang QF,Shen B,Boes A,Peters JD,Jin W,Xiang C,Liu S,Moille G,Yu SP,Wang X,Srinivasan K,Papp SB,Vahala K,Bowers JE

更新日期：2020-03-12 00:00:00

abstract：:The ribosome stalls on translation of polyproline sequences due to inefficient peptide bond formation between consecutive prolines. The translation factor EF-P is able to alleviate this stalling by accelerating Pro-Pro formation. However, the mechanism by which EF-P recognizes the stalled complexes and accelerates pep...

journal_title：Nature communications

authors： Katoh T,Wohlgemuth I,Nagano M,Rodnina MV,Suga H

更新日期：2016-05-24 00:00:00

abstract：:The original version of this Article omitted a declaration from the Competing Interests statement, which should have included the following: 'A patent has been applied for by Emory University with F.E.L, I.S. and D.C. N. as named inventors. The patent application number is PCT/US2016/036650'. This has now been correct...

journal_title：Nature communications

authors： Nguyen DC,Garimalla S,Xiao H,Kyu S,Albizua I,Galipeau J,Chiang KY,Waller EK,Wu R,Gibson G,Roberson J,Lund FE,Randall TD,Sanz I,Lee FE

更新日期：2019-01-17 00:00:00

abstract：:Intestinal intraepithelial T cells contribute to the regulation of inflammatory responses in the intestine; however, the molecular basis for their development and maintenance is unknown. The aryl hydrocarbon receptor complexes with the aryl hydrocarbon receptor nuclear translocator (ARNT) and senses environmental fact...

journal_title：Nature communications

authors： Nakajima K,Maekawa Y,Kataoka K,Ishifune C,Nishida J,Arimochi H,Kitamura A,Yoshimoto T,Tomita S,Nagahiro S,Yasutomo K

更新日期：2013-01-01 00:00:00

abstract：:Ubiquitin-specific protease 14 (USP14) is one of the major proteasome-associated deubiquitinating enzymes critical for proteome homeostasis. However, substrates of USP14 remain largely unknown, hindering the understanding of its functional roles. Here we conduct a comprehensive proteome, ubiquitinome and interactome a...

journal_title：Nature communications

authors： Liu B,Jiang S,Li M,Xiong X,Zhu M,Li D,Zhao L,Qian L,Zhai L,Li J,Lu H,Sun S,Lin J,Lu Y,Li X,Tan M

更新日期：2018-11-13 00:00:00

abstract：:RNA-binding proteins (RBPs) integrate the processing of RNAs into post-transcriptional gene regulation, but the direct contribution of them to myeloid cell specification is poorly understood. Here, we report the first global RBP transcriptomic analysis of myeloid differentiation by combining RNA-seq analysis with myel...

journal_title：Nature communications

authors： Zhao H,Wang X,Yi P,Si Y,Tan P,He J,Yu S,Ren Y,Ma Y,Zhang J,Wang D,Wang F,Yu J

更新日期：2017-11-10 00:00:00

abstract：:Understanding and predicting radiation damage evolution in complex materials is crucial for developing next-generation nuclear energy sources. Here, using a combination of ion beam irradiation, transmission electron microscopy and X-ray diffraction, we show that, contrary to the behaviour observed in pyrochlores, the ...

journal_title：Nature communications

authors： Uberuaga BP,Tang M,Jiang C,Valdez JA,Smith R,Wang Y,Sickafus KE

更新日期：2015-10-29 00:00:00

abstract：:Spinal motor neurons (MNs) control diverse motor tasks including respiration, posture and locomotion that are disrupted by neurodegenerative diseases such as amyotrophic lateral sclerosis and spinal muscular atrophy. Methods directing MN differentiation from stem cells have been developed to enable disease modelling i...

journal_title：Nature communications

authors： Adams KL,Rousso DL,Umbach JA,Novitch BG

更新日期：2015-04-14 00:00:00

abstract：:Development of on-chip integrated carbon-based optoelectronic nanocircuits requires fast and non-invasive structural characterization of their building blocks. Recent advances in synthesis of single wall carbon nanotubes and graphene nanoribbons allow for their use as atomically precise building blocks. However, while...

journal_title：Nature communications

authors： Payod RB,Grassano D,Santos GNC,Levshov DI,Pulci O,Saroka VA

更新日期：2020-01-03 00:00:00

abstract：:MAVS and MITA are essential adaptor proteins mediating innate antiviral immune responses against RNA and DNA viruses, respectively. Here we show that RNF115 plays dual roles in response to RNA or DNA virus infections by catalyzing distinct types of ubiquitination of MAVS and MITA at different phases of viral infection...

journal_title：Nature communications

authors： Zhang ZD,Xiong TC,Yao SQ,Wei MC,Chen M,Lin D,Zhong B

更新日期：2020-11-02 00:00:00

abstract：:State-of-the-art techniques allow researchers to record large numbers of spike trains in parallel for many hours. With enough such data, we should be able to infer the connectivity among neurons. Here we develop a method for reconstructing neuronal circuitry by applying a generalized linear model (GLM) to spike cross-...

journal_title：Nature communications

authors： Kobayashi R,Kurita S,Kurth A,Kitano K,Mizuseki K,Diesmann M,Richmond BJ,Shinomoto S

更新日期：2019-10-02 00:00:00

abstract：:The fate of the enormous amount of reactive nitrogen released to the environment by human activities in India is unknown. Here we show occurrence of seasonal stratification and generally low concentrations of dissolved inorganic combined nitrogen, and high molecular nitrogen (N2) to argon ratio, thus suggesting season...

journal_title：Nature communications

authors： Naqvi SWA,Lam P,Narvenkar G,Sarkar A,Naik H,Pratihary A,Shenoy DM,Gauns M,Kurian S,Damare S,Duret M,Lavik G,Kuypers MMM

更新日期：2018-03-28 00:00:00