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3920 Publications

Showing 2551-2560 of 3920 results
07/09/20 | Nurturing Undergraduate Researchers in Biomedical Sciences.
Li J, Luo L
Cell. 07/2020;182(1):1-4. doi: 10.1016/j.cell.2020.05.008

Undergraduate researchers are the next-generation scientists. Here, we call for more attention from our community to the proper training of undergraduates in biomedical research laboratories. By dissecting common pitfalls, we suggest how to better mentor undergraduates and prepare them for flourishing careers.

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Tjian Lab
03/01/06 | Nutrient availability and growth: regulation of insulin signaling by dFOXO/FOXO1.
Puig O, Tjian R
Cell Cycle. 2006 Mar;5(5):503-5. doi: 10.1073/pnas.1100640108

Organisms adjust their rate of growth depending on the availability of nutrients. Thus, when environmental conditions limit nutrients, growth is slowed and is only restored after food again becomes abundant. Many aspects of the molecular mechanisms that govern this complex control system remain unknown. However, it has been shown that the insulin/IGF-1 (insulin-like growth factor 1) receptor pathway, together with the FOXO family of transcription factors, play an important role in this process. Recent studies with the fruit fly Drosophila melanogaster have provided new insights into the regulatory circuitry that controls both growth and gene expression in response to nutrient availability.

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Svoboda Lab
01/17/19 | NWB:N 2.0: An accessible data standard for neurophysiology.
Rubel O, Tritt A, Dichter B, Braun T, Cain N, Clack NG, Davidson TJ, Dougherty M, Fillion-Rubin J, Graddis N, Grauer M, Kiggins JT, Niu L, Ozturk D, Schroeder W, Soltesz I, Sommer FT, Svoboda K, Ng L, et al
bioRxiv. 2019 Jan 17:. doi: 10.1101/523035

Neurodata Without Borders: Neurophysiology (NWB:N) is a data standard for neurophysiology, providing neuroscientists with a common standard to share, archive, use, and build common analysis tools for neurophysiology data. With NWB:N version 2.0 (NWB:N 2.0) we made significant advances towards creating a usable standard, software ecosystem, and vibrant community for standardizing neurophysiology data. In this manuscript we focus in particular on the NWB:N data standard schema and present advances towards creating an accessible data standard for neurophysiology.

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Pastalkova Lab
02/25/04 | Object-location memory impairment in patients with thermal lesions to the right or left hippocampus.
Stepankova K, Fenton AA, Pastalkova E, Kalina M, Bohbot VD
Neuropsychologia. 2004 Feb 25;42(8):1017-28. doi: 10.1016/j.neuropsychologia.2004.01.002

Memory for object-location was investigated by testing subjects with small unilateral thermolesions to the medial temporal lobe using small-scale 2D (Abstract) or large-scale 3D (Real) recall conditions. Four patients with lesions of the left hippocampus (LH), 10 patients with damage to the right hippocampus (RH) and 9 matched normal controls (NC) were tested. Six task levels were presented in a pseudorandom order. During each level, subjects viewed one to six different objects on the floor of a circular curtained arena 2.90 m in diameter for 10 s. Recall was tested by marking the locations of objects on a map of the arena (Abstract recall) and then by replacing the objects in the arena (Real recall). Two component errors were studied by calculating the Location Error (LE), independent of the object identity and the configuration error by finding the best match to the presented configuration. The RH group was impaired relative to the NC for nearly all combinations of recall and error types. An impairment was observed in this group even for one object and it deepened sharply with an increasing object number. Damage to the right perirhinal or parahippocampal cortices did not add to the impairment. Deficits in the LH group were also observed, but less consistently. The data indicate that spatial memory is strongly but not exclusively lateralised to the right medial temporal lobe.

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04/11/07 | Observability of Higgs produced with top quarks and decaying to bottom quarks
Benedetti D, Cucciarelli S, Hill C, Incandela J, Koay SA, Riccardi C, Santocchia A, Schmidt A, Torre P, Weiser C
Journal of Physics G: Nuclear and Particle Physics. 04/20027;34(5):N221 - N250. doi: 10.1088/0954-3899/34/5/N03

The decay, , is dominant for a Standard Model Higgs boson in the mass range just above the exclusion limit of 114.4 GeV/c2 reported by the LEP experiments. Unfortunately, an overwhelming abundance of  events arising from more mundane sources, together with the lack of precision inherent in the reconstruction of the Higgs mass, renders this decay mode a priori undetectable in the case of direct Higgs production at the LHC. It is therefore of no small interest to investigate whether  can be observed in those cases where the Higgs is produced in association with other massive particles. In this note, the results of a study of Higgs bosons produced in association with top quarks and decaying via  are presented. The study was performed as realistically as possible by employing a full and detailed Monte Carlo simulation of the CMS detector followed by the application of trigger and reconstruction algorithms that were developed for use with real data. Important systematic effects resulting from such sources as the uncertainties in the jet energy scale and the estimated rates for correctly tagging b jets or mistagging non-b jets have been taken into account. The impact of large theoretical uncertainties in the cross sections for  plus N jets processes due to an absence of next-to-leading order calculations is also considered.

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Magee Lab
12/22/11 | Observations on clustered synaptic plasticity and highly structured input patterns.
Magee JC
Neuron. 2011 Dec 22;72(6):887-8. doi: 10.1016/j.neuron.2011.12.009

In this issue of Neuron, Makino and Malinow and Kleindienst et al. present evidence of a behaviorally induced form of synaptic plasticity that would encourage the development of fine-scale structured input patterns and the binding of features within single neurons.

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02/08/11 | Observers exploit stochastic models of sensory change to help judge the passage of time.
Ahrens MB, Sahani M
Current Biology. 2011 Feb 8;21(3):200-6. doi: 10.1016/j.cub.2010.12.043

Sensory stimulation can systematically bias the perceived passage of time, but why and how this happens is mysterious. In this report, we provide evidence that such biases may ultimately derive from an innate and adaptive use of stochastically evolving dynamic stimuli to help refine estimates derived from internal timekeeping mechanisms. A simplified statistical model based on probabilistic expectations of stimulus change derived from the second-order temporal statistics of the natural environment makes three predictions. First, random noise-like stimuli whose statistics violate natural expectations should induce timing bias. Second, a previously unexplored obverse of this effect is that similar noise stimuli with natural statistics should reduce the variability of timing estimates. Finally, this reduction in variability should scale with the interval being timed, so as to preserve the overall Weber law of interval timing. All three predictions are borne out experimentally. Thus, in the context of our novel theoretical framework, these results suggest that observers routinely rely on sensory input to augment their sense of the passage of time, through a process of Bayesian inference based on expectations of change in the natural environment.

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04/20/18 | Observing the cell in its native state: Imaging subcellular dynamics in multicellular organisms.
Liu T, Upadhyayula S, Milkie DE, Singh V, Wang K, Swinburne IA, Mosaliganti KR, Collins ZM, Hiscock TW, Shea J, Kohrman AQ, Medwig TN, Dambournet D, Forster R, Cunniff B, Ruan Y, Yashiro H, Scholpp S, Meyerowitz EM, Hockemeyer D, Drubin DG, Martin BL, Matus DQ, Koyama M, Megason SG, Kirchhausen T, Betzig E
Science (New York, N.Y.). 2018 Apr 20;360(6386):. doi: 10.1126/science.aaq1392

True physiological imaging of subcellular dynamics requires studying cells within their parent organisms, where all the environmental cues that drive gene expression, and hence the phenotypes that we actually observe, are present. A complete understanding also requires volumetric imaging of the cell and its surroundings at high spatiotemporal resolution, without inducing undue stress on either. We combined lattice light-sheet microscopy with adaptive optics to achieve, across large multicellular volumes, noninvasive aberration-free imaging of subcellular processes, including endocytosis, organelle remodeling during mitosis, and the migration of axons, immune cells, and metastatic cancer cells in vivo. The technology reveals the phenotypic diversity within cells across different organisms and developmental stages and may offer insights into how cells harness their intrinsic variability to adapt to different physiological environments.

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02/17/09 | Odor coding by modules of coherent mitral/tufted cells in the vertebrate olfactory bulb.
Chen T, Lin B, Schild D
Proceedings of the National Academy of Sciences of the United States of America. 2009 Feb 17;106(7):2401-6. doi: 10.1073/pnas.0810151106

Odor representation in the olfactory bulb (OB) undergoes a transformation from a combinatorial glomerular map to a distributed mitral/tufted (M/T) cell code. To understand this transformation, we analyzed the odor representation in large populations of individual M/T cells in the Xenopus OB. The spontaneous [Ca(2+)] activities of M/T cells appeared to be irregular, but there were groups of spatially distributed neurons showing synchronized [Ca(2+)] activities. These neurons were always connected to the same glomerulus. Odorants elicited complex spatiotemporal response patterns in M/T cells where nearby neurons generally showed little correlation. But the responses of neurons connected to the same glomerulus were virtually identical, irrespective of whether the responses were excitatory or inhibitory, and independent of the distance between them. Synchronous neurons received correlated EPSCs and were coupled by electrical conductances that could account for the correlated responses. Thus, at the output stage of the OB, odors are represented by modules of distributed and synchronous M/T cells associated with the same glomeruli. This allows for parallel input to higher brain centers.

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04/09/18 | Odorant binding protein 69a connects social interaction to modulation of social responsiveness in Drosophila.
Bentzur A, Shmueli A, Omesi L, Ryvkin J, Knapp J, Parnas M, Davis FP, Shohat-Ophir G
PLoS Genetics. 2018 Apr 09;14(4):e1007328. doi: 10.1371/journal.pgen.1007328

Living in a social environment requires the ability to respond to specific social stimuli and to incorporate information obtained from prior interactions into future ones. One of the mechanisms that facilitates social interaction is pheromone-based communication. In Drosophila melanogaster, the male-specific pheromone cis-vaccenyl acetate (cVA) elicits different responses in male and female flies, and functions to modulate behavior in a context and experience-dependent manner. Although it is the most studied pheromone in flies, the mechanisms that determine the complexity of the response, its intensity and final output with respect to social context, sex and prior interaction, are still not well understood. Here we explored the functional link between social interaction and pheromone-based communication and discovered an odorant binding protein that links social interaction to sex specific changes in cVA related responses. Odorant binding protein 69a (Obp69a) is expressed in auxiliary cells and secreted into the olfactory sensilla. Its expression is inversely regulated in male and female flies by social interactions: cVA exposure reduces its levels in male flies and increases its levels in female flies. Increasing or decreasing Obp69a levels by genetic means establishes a functional link between Obp69a levels and the extent of male aggression and female receptivity. We show that activation of cVA-sensing neurons is sufficeint to regulate Obp69a levels in the absence of cVA, and requires active neurotransmission between the sensory neuron to the second order olfactory neuron. The cross-talk between sensory neurons and non-neuronal auxiliary cells at the olfactory sensilla, represents an additional component in the machinery that promotes behavioral plasticity to the same sensory stimuli in male and female flies.

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