840 Works

Theta dominates cross-frequency coupling in hippocampal-medial entorhinal circuit during awake-behavior in rats

Yuchen Zhou, Andrew Maurer, Jack Kennedy, Nicholas Dicola, Sara Burke, Alex Sheremet, Qin Yu & Sarah Lovett
Hippocampal theta and gamma rhythms are hypothesized to play a role in the physiology of higher cognition. Prior research has reported that an offset in theta cycles between the entorhinal cortex, CA3, and CA1 regions promotes independence of population activity across the hippocampus. In line with this idea, it has recently been observed that CA1 pyramidal cells can establish and maintain coordinated place cell activity intrinsically, with minimal reliance on afferent input. Counter to these...

Macaques preferentially attend to intermediately surprising information

Shengyi Wu, Tommy Blanchard, Emily Meschke, Richard Aslin, Ben Hayden & Celeste Kidd
Normative learning theories dictate that we should preferentially attend to informative sources, but only up to the point that our limited learning systems can process their content. Humans, including infants, show this predicted strategic deployment of attention. Here we demonstrate that rhesus monkeys, much like humans, attend to events of moderate surprisingness over both more and less surprising events. They do this in the absence of any specific goal or contingent reward, indicating that the...

Experimental realization of the 1D random field Ising model

Nicholas Bingham, Spencer Rooke, Jungsik Park, Alejandro Simon, William Zhu, Xiaoyu Zhang, Joseph Batley, Justin Watts, Chris Leighton, Karin Dahmen & Peter Schiffer
We have measured magnetic-field-induced avalanches in a square artificial spin ice array of interacting nanomagnets. Starting from the ground state ordered configuration, we imaged the individual nanomagnet moments after each successive application of an incrementally increasing field. The statistics of the evolution of the moment configuration show good agreement with the canonical one-dimensional random field Ising model. We extract information about the microscopic structure of the arrays from our macroscopic measurements of their collective behavior,...

Collective ferromagnetism of artificial square spin ice

Nicholas Bingham, Xiaoyu Zhang, Justin Ramberger, Olle Heinonen, Chris Leighton & Peter Schiffer
We have studied the temperature and magnetic field dependence of the total magnetic moment of large-area permalloy artificial square spin ice arrays. The temperature dependence and hysteresis behavior are consistent with the coherent magnetization reversal expected in the Stoner-Wohlfarth model, with clear deviations due to inter-island interactions at small lattice spacing. Through micromagnetic simulations, we explore this behavior and demonstrate that the deviations result from increasingly complex magnetization reversal at small lattice spacing, induced by...

Precipitation Efficiency Constraint on Climate Change

Ryan Li
Precipitation efficiency (PE) relates cloud condensation to precipitation and intrinsically binds atmospheric circulation to the hydrological cycle. Due to PE’s inherent microphysical dependencies, definitions and estimates vary immensely. Consequently, PE’s sensitivity to greenhouse warming and implications for climate change are poorly understood. Here, we quantify PE’s role in climate change by defining a simple index as the ratio of surface precipitation to condensed water path. This macroscopic metric is reconcilable with microphysical PE measures and...

Aedes aegypti in North America (Microsatellite and SNP array)

Evlyn Pless, Andrea Gloria-Soria & Jeffrey Powell
The Aedes aegypti mosquito first invaded the Americas about 500 years ago and today is a widely distributed invasive species and the primary vector for viruses causing dengue, chikungunya, Zika, and yellow fever. Here we test the hypothesis that the North American colonization by Ae. aegypti occurred via a series of founder events. We present findings on genetic diversity, structure, and demographic history using data from 70 Ae. aegypti populations in North America genotyped at...

Rapid parallel morphological and mechanical diversification of South American Pike Cichlids (Crenicichla)

Edward Burress
Explosive bouts of diversification are one of the most conspicuous features of the tree of life. When such bursts are repeated in similar environments it suggests some degree of predictability in the evolutionary process. We assess parallel adaptive radiation of South American pike cichlids (Crenicichla) using phylogenomics and phylogenetic comparative methods. We find that species flocks in the Uruguay and Iguazú River basins rapidly diversified into the same set of ecomorphs that reflect feeding ecology....

Tropical montane forest in South Asia: Composition, structure and dieback in relation to soils and topography

Tithira Lakkana, Mark Ashton & Sisira Ediriweera
We evaluated the composition, structure and dieback of a montane forest in relation to soils and physiography of an important biogeographic region that has been sparsely studied. Our objectives were to: 1. Describe the forest composition and structure; 2. Assess the current extent of dieback; and 3. Relate tree composition, structure, and dieback proneness to edaphic and physiographic measures. We enumerated all live and dead standing plants ≥ 3 cm diameter at breast height (DBH),...

Additional file 5 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

Xuewen Zhu, Yaolei Mi, Xiangxiao Meng, Yiming Zhang, Weiqiang Chen, Xue Cao, Huihua Wan, Wei Yang, Jun Li, Sifan Wang, Zhichao Xu, Atia Tul Wahab, Shilin Chen & Wei Sun
Additional file 5: Table S4. The list of flavonoid-related genes in the phylogenetic analysis from C. sativa and other plant species.

Additional file 7 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

Xuewen Zhu, Yaolei Mi, Xiangxiao Meng, Yiming Zhang, Weiqiang Chen, Xue Cao, Huihua Wan, Wei Yang, Jun Li, Sifan Wang, Zhichao Xu, Atia Tul Wahab, Shilin Chen & Wei Sun
Additional file 7: Figure S3. Comparsion of CsFLS2 and CsFLS3 with other proteins belonging to DOXC 28/47 subgroup of 2-ODD superfamily.

Additional file 8 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

Xuewen Zhu, Yaolei Mi, Xiangxiao Meng, Yiming Zhang, Weiqiang Chen, Xue Cao, Huihua Wan, Wei Yang, Jun Li, Sifan Wang, Zhichao Xu, Atia Tul Wahab, Shilin Chen & Wei Sun
Additional file 8: Table S5. Cloning primers of CsFLS2 and CsFLS3 in C. sativa.

Additional file 7 of Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

Xuewen Zhu, Yaolei Mi, Xiangxiao Meng, Yiming Zhang, Weiqiang Chen, Xue Cao, Huihua Wan, Wei Yang, Jun Li, Sifan Wang, Zhichao Xu, Atia Tul Wahab, Shilin Chen & Wei Sun
Additional file 7: Figure S3. Comparsion of CsFLS2 and CsFLS3 with other proteins belonging to DOXC 28/47 subgroup of 2-ODD superfamily.

Genome-wide identification of key enzyme-encoding genes and the catalytic roles of two 2-oxoglutarate-dependent dioxygenase involved in flavonoid biosynthesis in Cannabis sativa L.

Xuewen Zhu, Yaolei Mi, Xiangxiao Meng, Yiming Zhang, Weiqiang Chen, Xue Cao, Huihua Wan, Wei Yang, Jun Li, Sifan Wang, Zhichao Xu, Atia Tul Wahab, Shilin Chen & Wei Sun
Abstract Background Flavonoids are necessary for plant growth and resistance to adversity and stress. They are also an essential nutrient for human diet and health. Among the metabolites produced in Cannabis sativa (C. sativa), phytocannabinoids have undergone extensive research on their structures, biosynthesis, and biological activities. Besides the phytocannabinoids, C. sativa is also rich in terpenes, alkaloids, and flavonoids, although little research has been conducted in this area. Results In this study, we identified 11...

Additional file 1 of Adapting a tobacco cessation treatment intervention and implementation strategies to enhance implementation effectiveness and clinical outcomes in the context of HIV care in Vietnam: a case study

Donna Shelley, Gloria Guevara Alvarez, Trang Nguyen, Nam Nguyen, Lloyd Goldsamt, Charles Cleland, Yesim Tozan, Jonathan Shuter & Mari Armstrong-Hough
Additional file 1. Patient individual interview guide.

Additional file 3 of Tick transmission of Borrelia burgdorferi to the murine host is not influenced by environmentally acquired midgut microbiota

Sukanya Narasimhan, Nallakkandi Rajeevan, Morven Graham, Ming-Jie Wu, Kathleen DePonte, Solenne Marion, Orlanne Masson, Anya J. O’Neal, Joao H. F. Pedra, Daniel E. Sonenshine & Erol Fikrig
Additional file 3: Supplementary Figure 3. Transmission electron microscopy (TEM) of tick midguts shows apposed tight junctions. B. burgdorferi-infected ticks were fed on pathogen-free mice for 48 h, removed from the host, dissected to obtain tick midguts, processed for TEM analysis and visualized. Panels I, and II are representative of approximately 10 midguts at 48 h of feeding showing B. burgdorferi in the midgut lumen and the tight junctions between two adjacent epithelial cells. Panel...

Tick transmission of Borrelia burgdorferi to the murine host is not influenced by environmentally acquired midgut microbiota

Sukanya Narasimhan, Nallakkandi Rajeevan, Morven Graham, Ming-Jie Wu, Kathleen DePonte, Solenne Marion, Orlanne Masson, Anya J. O’Neal, Joao H. F. Pedra, Daniel E. Sonenshine & Erol Fikrig
Abstract Background Ixodes scapularis is the predominant tick vector of Borrelia burgdorferi, the agent of Lyme disease, in the USA. Molecular interactions between the tick and B. burgdorferi orchestrate the migration of spirochetes from the midgut to the salivary glands—critical steps that precede transmission to the vertebrate host. Over the last decade, research efforts have invoked a potential role for the tick microbiome in modulating tick-pathogen interactions. Results Using multiple strategies to perturb the microbiome...

Additional file 1 of Tick transmission of Borrelia burgdorferi to the murine host is not influenced by environmentally acquired midgut microbiota

Sukanya Narasimhan, Nallakkandi Rajeevan, Morven Graham, Ming-Jie Wu, Kathleen DePonte, Solenne Marion, Orlanne Masson, Anya J. O’Neal, Joao H. F. Pedra, Daniel E. Sonenshine & Erol Fikrig
Additional file 1: Supplementary Figure 1. Abundance of predominant microbiota associated with I. scapularis nymphs raised in germ-free isolators or normal incubators. B. burgdorferi-infected I. scapularis nymphs raised in germ-free isolators (GF) or normal incubators and fed to repletion on germ-free or normal pathogen-free C57/BL6 respectively. Abundance of predominant microbiota was assessed in the midguts of unfed (A-D) and fed (E-H) GF and normal nymphs by qPCR using universal 16S primers (A and E); primers...

A general method for calculating power for GEE analysis of complete and incomplete stepped wedge cluster randomized trials

Ying Zhang, John S Preisser, Elizabeth L Turner, Paul J Rathouz, Mark Toles & Fan Li
Stepped wedge designs have uni-directional crossovers at randomly assigned time points (steps) where clusters switch from control to intervention condition. Incomplete stepped wedge designs are increasingly used in cluster randomized trials of health care interventions and have periods without data collection due to logistical, resource and patient-centered considerations. The development of sample size formulae for stepped wedge trials has primarily focused on complete designs and continuous responses. Addressing this gap, a general, fast, non-simulation based...

Additional file 3 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 3: Table S2. Summary of the metagenome sequencing statistics.

Additional file 8 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 8: Table S7. Genomic and proteomic information of 20 MAGs recovered in this study.

Additional file 6 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 6: Table S5. The average nucleotide identity (ANI) and amino acid identity (AAI) between MAGs and their closes relatives.

Additional file 6 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 6: Table S5. The average nucleotide identity (ANI) and amino acid identity (AAI) between MAGs and their closes relatives.

Additional file 1 of Genome-centric insight into metabolically active microbial population in shallow-sea hydrothermal vents

Xiaofeng Chen, Kai Tang, Mu Zhang, Shujing Liu, Mingming Chen, Peiwen Zhan, Wei Fan, Chen-Tung Arthur Chen & Yao Zhang
Additional file 1: Fig. S1. Fragment recruitment analysis. Fig. S2. The relative abundance of transporter proteins in metaproteome. Fig. S3. Profiles of transporter genes in the assembled MAGs within Epsilonbacteraeota and Gammaproteobacteria.

Additional file 2 of Interventions to mitigate vaping misinformation: protocol for a scoping review

Navin Kumar, Sam Hampsher, Nathan Walter, Kate Nyhan & Munmun De Choudhury
Additional file 2. MEDLINE draft search strategy.

Additional file 2 of Revealing the characteristics of ZIKV infection through tissue-specific transcriptome sequencing analysis

Zhi-lu Chen, Zuo-jing Yin, Tian-yi Qiu, Jian Chen, Jian Liu, Xiao-yan Zhang & Jian-qing Xu
Additional file 2: Supplementary Fig. 1. The classification plot of samples from three cell lines based on all the DEGs. Cells were treated with (3, 12, 24 h.p.i.) or without (normal group) ZIKV infection; Supplementary Fig. 2. The expression heatmap of 33 common DEGs among JEG-3, U-251 MG, and HK-2 cells; Supplementary Fig 3. The enriched GO BPs of DEGs from 3 cell lines, including (a) JEG-3, (b) U-251 MG, (c) HK-2 cells. Supplementary Table...

Registration Year

  • 2022
    840

Resource Types

  • Text
    302
  • Dataset
    247
  • Collection
    198
  • Image
    80
  • Audiovisual
    8
  • Journal Article
    2
  • Other
    2
  • Journal
    1

Affiliations

  • Yale University
    840
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    371
  • Fudan University
    355
  • Sichuan University
    308
  • Sun Yat-sen University
    307
  • Zhejiang University
    256
  • Shanghai Jiao Tong University
    248
  • Huazhong University of Science and Technology
    234
  • University of Chinese Academy of Sciences
    229
  • Chinese Academy of Sciences
    228