30 Works

Data from: Catechol-O-Methyltransferase moderates effect of stress mindset on affect and cognition

Alia J. Crum, Modupe Akinola, Bradley P. Turnwald, Ted J. Kaptchuk & Kathryn T. Hall
There is evidence that altering stress mindset— the belief that stress is enhancing vs. debilitating —can change cognitive, affective and physiological responses to stress. However individual differences in responsiveness to stress mindset manipulations have not been explored. Given the previously established role of catecholamines in both placebo effects and stress, we hypothesized that genetic variation in catechol-O-methyltransferase (COMT), an enzyme that metabolizes catecholamines, would moderate responses to an intervention intended to alter participants’ mindsets about...

Data from: Multiple benefits of alloparental care in a fluctuating environment

Sarah Guindre-Parker & Dustin R. Rubenstein
Although cooperatively breeding vertebrates occur disproportionately in unpredictable environments, the underlying mechanism shaping this biogeographic pattern remains unclear. Cooperative breeding may buffer against harsh conditions (hard life hypothesis), or additionally allow for sustained breeding under benign conditions (temporal variability hypothesis). To distinguish between the hard life and temporal variability hypotheses, we investigated whether the number of alloparents at a nest increased reproductive success or load-lightening in superb starlings (Lamprotornis superbus), and whether these two types...

Data from: Abundance-dependent effects of neighborhood dissimilarity and growth rank reversal in a Neotropical forest

Yuxin Chen, María Natalia Umaña, María Uriarte & Shixiao Yu
Why tropical forests harbor an exceptional number of species with striking differences in abundances remains an open question. We propose a theoretical framework to address this question in which rare species may have different extirpation risks depending on species ranks in tree growth and sensitivities to neighborhood interactions. To evaluate the framework, we studied tree growth and its responses to neighborhood dissimilarity (ND) in traits and phylogeny for 146 species in a Neotropical forest. We...

Data from: Trends in anesthesiology research: a machine learning approach to theme discovery and summarization

Alexander Rusanov, Riccardo Miotto & Chunhua Weng
Objectives: Traditionally, summarization of research themes and trends within a given discipline was accomplished by manual review of scientific works in the field. However, with the ushering in of the age of “big data”, new methods for discovery of such information become necessary as traditional techniques become increasingly difficult to apply due to the exponential growth of document repositories. Our objectives are to develop a pipeline for unsupervised theme extraction and summarization of thematic trends...

Data from: Efficient and accurate extraction of in vivo calcium signals from microendoscopic video data

Pengcheng Zhou, Shanna L. Resendez, Jose Rodriguez-Romaguera, Jessica C. Jimenez, Shay Q. Neufeld, Andrea Giovannucci, Johannes Friedrich, Eftychios A Pnevmatikakis, Garret D. Stuber, Rene Hen, Mazen A. Kheirbek, Bernardo L. Sabatini, Robert E. Kass & Liam Paninski
In vivo calcium imaging through microendoscopic lenses enables imaging of previously inaccessible neuronal populations deep within the brains of freely moving animals. However, it is computationally challenging to extract single-neuronal activity from microendoscopic data, because of the very large background fluctuations and high spatial overlaps intrinsic to this recording modality. Here, we describe a new constrained matrix factorization approach to accurately separate the background and then demix and denoise the neuronal signals of interest. We...

Data from: Postconvulsive central apnea as a biomarker for sudden unexpected death in epilepsy (SUDEP)

Laura Vilella, Nuria Lacuey, Johnson P. Hampson, M.R. Sandhya Rani, Rup K. Sanju, Daniel Friedman, Maromi Nei, Kingman Strohl, Catherine Scott, Brian K. Gehlbach, Bilal Zony, Norma J. Hupp, Anita Zaremba, Nassim Shafiabadi, Xihue Zhao, Victoria Reick-Mitrisin, Stephan Schuele, Jennifer Ogren, Ronald M. Harper, Beate Diehl, Lisa Bateman, Orrin Devinsky, George B. Richerson, Philippe Ryvlin & Samden D. Lhatoo
Objective: To characterize peri-ictal apnea and post-ictal asystole in generalized convulsive seizures (GCS) of intractable epilepsy. Methods: Prospective, multi-center epilepsy monitoring study of autonomic and breathing biomarkers of SUDEP in patient’s ≥18 years old with intractable epilepsy and monitored GCS. Video EEG, thoraco-abdominal excursions, nasal airflow, capillary oxygen saturation and electrocardiography were analyzed. Results: We studied 148 GCS in 87 patients. Nineteen patients had generalized epilepsy, 65 had focal, one had both and in two,...

Data from: Genomic divergence in allopatric Northern Cardinals of the North American warm deserts is linked to behavioral differentiation

Kaiya L. Provost, & Brian T Smith
Biogeographic barriers are thought to be important in initiating speciation through geographic isolation, but they rarely indiscriminately and completely reduce gene flow across the entire community. Understanding which species’ attributes regulate a barrier could help elucidate how speciation is initiated and isolation maintained. Here, we investigated the association of behavioral isolation on population differentiation in Northern Cardinals (Cardinalis cardinalis) distributed across the Cochise Filter Barrier, a region of transitional habitat which separates the Sonoran and...

Data from: Aspirin reduces long term stroke risk in women with prior hypertensive disorders of pregnancy

Eliza C. Miller, Amelia K. Boehme, Nadia T. Chung, James V. Lacey, Sophia Wang, Kamakshi Lakshminarayan, Charlie Zhong, Daniel Woo, Natalie A. Bello, Ronald Wapner, Mitchell S. V. Elkind & Joshua Zebadiah Willey
OBJECTIVE: To determine if hypertensive disorders of pregnancy (HDP) increased long-term stroke risk in women in the California Teachers Study (CTS), a prospective cohort study, and if aspirin or statin use modified this risk. METHODS: CTS participants aged ≤60 years at time of enrollment in 1995 were followed prospectively for validated stroke outcomes obtained via linkage with California hospital records through 12/31/2015. We calculated unadjusted and adjusted hazard ratios (HR) and 95% confidence intervals (95%CI)...

Data from: Host cues mediate growth and establishment of oak mistletoe (Phoradendron leucarpum, Viscaceae), an aerial parasitic plant.

Christopher P. Randle, Brandi C. Cannon, Amber L. Faust, Angela K. Hawkins, Sarah E. Cabrera, Stephen Lee, Amy A. Perez, Michelle L. Lewis, James Sopas, Timothy J. Verastegui, Justin K. Williams & Sara E. Cabrera
The oak mistletoe (Phoradendron leucarpum, Viscaceae) is well-documented to exhibit preference for a few potential host species in a given locality, even when many potential host species are present. In trying to explain this distribution, we examined the mechanisms by which mistletoe seedlings recognize potentially suitable hosts in the Piney Woods ecoregion of east Texas. An initial survey of patterns of infection on the campus of Sam Houston State University revealed that water oak (Quercus...

Data from: Large birds travel farther in homogeneous environments

Marlee A. Tucker, Olga Alexandrou, , Keith L. Bildstein, Katrin Böhning-Gaese, Chloe Bracis, John N. Brzorad, Evan R. Buechley, David Cabot, Justin M. Calabrese, Carlos Carrapato, André Chiaradia, Lisa C. Davenport, Sarah C. Davidson, Mark Desholm, Christopher R. DeSorbo, Robert Domenech, Peter Enggist, William F. Fagan, Nina Farwig, Wolfgang Fiedler, Christen H. Fleming, Alastair Franke, John M. Fryxell, Clara García-Ripollés … & João Paulo Silva
Aim: Animal movement is an important determinant of individual survival, population dynamics, and ecosystem structure and function. Yet it is still unclear how local movements are related to resource availability and the spatial arrangement of resources. Using resident bird species and migratory bird species outside of the migratory period, we examined how the distribution of resources affect the movement patterns of both large terrestrial birds (e.g., raptors, bustards, hornbills) and waterbirds (e.g., cranes, storks, ducks,...

Data from: Longitudinal cognitive and biomarker changes in dominantly inherited Alzheimer disease

Eric McDade, Guoqiao Wang, Brian Andrew Gordon, Jason Hassenstab, Tammie L.S. Benzinger, Virginia Buckles, Anne M. Fagan, David M. Holtzman, Nigel J. Cairns, Alison M. Goate, Daniel S. Marcus, John C. Morris, Katrina Paumier, Chengjie Xiong, Ricardo Allegri, Sarah B. Berman, William Klunk, James Nobel, John Ringman, Bernardino Ghetti, Martin Farlow, Reisa Anne Sperling, Jasmeer Chhatwal, Stephen Salloway, Neil R. Graff-Radford … & Randall J. Bateman
Objective: To assess the onset, sequence and rate of progression of comprehensive biomarker and clinical measures across the spectrum of Alzheimer disease using the Dominantly Inherited Alzheimer Network (DIAN) study and compare these to cross-sectional estimates. Methods: We conducted longitudinal clinical, cognitive, cerebrospinal fluid (CSF) and neuroimaging assessments (mean of 2.7 (+/- 1.1) visits) in 217 DIAN participants. Linear mixed effects models were used to assess changes in each measure relative to individuals’ estimated years...

Data from: How biological attention mechanisms improve task performance in a large-scale visual system model

Grace W. Lindsay & Kenneth D. Miller
How does attentional modulation of neural activity enhance performance? Here we use a deep convolutional neural network as a large-scale model of the visual system to address this question. We model the feature similarity gain model of attention, in which attentional modulation is applied according to neural stimulus tuning. Using a variety of visual tasks, we show that neural modulations of the kind and magnitude observed experimentally lead to performance changes of the kind and...

Data from: Light regulates tropical symbiotic nitrogen fixation more strongly than soil nitrogen

Benton N. Taylor
Nitrogen limits primary production in almost every biome on Earth1,2. Symbiotic nitrogen fixation, conducted by certain angiosperms and their endosymbiotic bacteria, is the largest potential natural source of new nitrogen into the biosphere3, influencing global primary production, carbon sequestration and element cycling. Because symbiotic nitrogen fixation represents an alternative to soil nitrogen uptake, much of the work on symbiotic nitrogen fixation regulation has focused on soil nitrogen availability4,5,6,7,8. However, because symbiotic nitrogen fixation is an...

Data from: Automated analysis of long-term grooming behavior in Drosophila using a k-nearest neighbors classifier

Bing Qiao, Chiyuan Li, Victoria W. Allen, Mimi M. Shirasu-Hiza & Sheyum Syed
Despite being pervasive, the control of programmed grooming is poorly understood. We addressed this gap by developing a high-throughput platform that allows long-term detection of grooming in Drosophila melanogaster. In our method, a k-nearest neighbors algorithm automatically classifies fly behavior and finds grooming events with over 90% accuracy in diverse genotypes. Our data show that flies spend ~13% of their waking time grooming, driven largely by two major internal programs. One of these programs regulates...

Data from: Natural selection interacts with recombination to shape the evolution of hybrid genomes

Molly Schumer, Chenling Xu, Daniel L Powell, Arun Durvasula, Laurits Skov, Chris Holland, John C Blazier, Sriram Sankararaman, Peter Andolfatto, Gil G Rosenthal & Molly Przeworski
To investigate the consequences of hybridization between species, we studied three replicate hybrid populations that formed naturally between two swordtail fish species, estimating their fine-scale genetic map and inferring ancestry along the genomes of 690 individuals. In all three populations, ancestry from the “minor” parental species is more common in regions of high recombination and where there is linkage to fewer putative targets of selection. The same patterns are apparent in a reanalysis of human...

Data from: Conservation of preparatory neural events in monkey motor cortex regardless of how movement is initiated

Antonio H Lara, Gamaleldin F Elsayed, Andrew J Zimnik, John P Cunningham & Mark M Churchland
A time-consuming preparatory stage is hypothesized to precede voluntary movement. A putative neural substrate of motor preparation occurs when a delay separates instruction and execution cues. When readiness is sustained during the delay, sustained neural activity is observed in motor and premotor areas. Yet whether delay-period activity reflects an essential preparatory stage is controversial. In particular, it has remained ambiguous whether delay-period-like activity appears before non-delayed movements. To overcome that ambiguity, we leveraged a recently...

Data from: Temporal scale of environmental correlations affects ecological synchrony

Robert A. Desharnais, Daniel C. Reuman, Robert F. Costantino & Joel E. Cohen
Population densities of a species, measured in different locations are often correlated over time, a phenomenon referred to as synchrony. Synchrony results from dispersal of individuals among locations and spatially correlated environmental variation, among other causes. Synchrony is often measured by a correlation coefficient. However, synchrony can vary with timescale. We demonstrate theoretically and experimentally that the timescale-specificity of environmental correlation affects the overall magnitude and timescale-specificity of synchrony, and that these effects are modified...

Data from: Population-specific genetic modification of Huntington's disease in Venezuela

Michael J. Chao, Kyung-Hee Kim, Jun Wan Shin, Diane Lucente, Vanessa C. Wheeler, Hong Li, Jared C. Roach, Leroy Hood, Nancy S. Wexler, Laura B. Jardim, Peter Holmans, Lesley Jones, Michael Orth, Seung Kwak, James F. Gusella, Marcy E. MacDonald & Jong-Min Lee
Modifiers of Mendelian disorders can provide insights into disease mechanisms and guide therapeutic strategies. A recent genome-wide association (GWA) study discovered genetic modifiers of Huntington's disease (HD) onset in Europeans. Here, we performed whole genome sequencing and GWA analysis of a Venezuelan HD cluster whose families were crucial for the original mapping of the HD gene defect. The Venezuelan HD subjects develop motor symptoms earlier than their European counterparts, implying the potential for population-specific modifiers....

Data from: An MRI measure of degenerative and cerebrovascular pathology in Alzheimer’s disease

Adam M. Brickman, Giuseppe Tosto, Jose Gutierrez, Howard Andrews, Yian Gu, Atul Narkhede, Batool Rizvi, Vanessa Guzman, Jennifer J. Manly, Jean Paul Vonsattel, Nicole Schupf & Richard Mayeux
Objective: To develop, replicate, and validate an MRI-based quantitative measure of both cerebrovascular and neurodegeneration in Alzheimer’s disease for clinical and potentially research purposes. Methods. We used data from a cross-sectional and longitudinal community-based study of Medicare-eligible residents in northern Manhattan followed every 18-24 months (N=1,175, mean age=78 years). White matter hyperintensities, infarcts, hippocampal volumes, and cortical thicknesses were quantified from MRI and combined to generate an MRI measure associated with episodic memory. The combined...

Data from: Archaeogenomic evidence from the southwestern US points to a pre-Hispanic scarlet macaw breeding colony

Richard J. George, Stephen Plof, Adam S. Watson, Kari L. Schmidt, Brandon J. Culleton, Thomas K. Harper, Patricia A. Gilman, Steven A. LeBlanc, George Amato, Peter Whiteley, Logan Kistler & Douglas J. Kennett
Hundreds of scarlet macaw (Ara macao cyanoptera) skeletons have been recovered from archaeological contexts in the southwestern United States and northwestern Mexico (SW/NW). The location of these skeletons, >1,000 km outside their Neotropical endemic range, has suggested a far-reaching pre-Hispanic acquisition network. Clear evidence for scarlet macaw breeding within this network is only known from the settlement of Paquimé in NW dating between 1250 and 1450 CE. Although some scholars have speculated on the probable...

Data from: Social density, but not sex ratio, drives ecdysteroid hormone provisioning to eggs by female house crickets (Acheta domesticus)

Katherine C. Crocker, Mark Hunter & Mark D. Hunter
Social environment profoundly influences the fitness of animals, affecting their probability of survival to adulthood, longevity, and reproductive output. The social conditions experienced by parents at the time of reproduction predict the social environments that offspring will face. Despite clear challenges in predicting future environmental conditions, adaptive maternal effects provide a mechanism of passing environmental information from parent to offspring, and are now considered pervasive in natural systems. Maternal effects have been widely studied in...

Data from: Encephalization and longevity evolved in a correlated fashion in Euarchontoglires but not in other mammals

Alex R. DeCasien, Nicole A. Thompson, Scott A. Williams & Milena R. Shattuck
Across mammals, encephalization and longevity show a strong correlation. It is not clear, however, whether these traits evolved in a correlated fashion within mammalian orders, or when they do, whether one trait drives changes in the other. Here, we compare independent and correlated evolutionary models to identify instances of correlated evolution within six mammalian orders. In cases of correlated evolution, we subsequently examined transition patterns between small/large relative brain size and short/long lifespan. In four...

Data from: The return to water in ancestral Xenopus was accompanied by a novel mechanism for producing and shaping vocal signals

Ursula Kwong-Brown, Martha L. Tobias, Damian O. Elias, Ian C. Hall, Coen P.H. Elemans, Darcy B. Kelley & Coen PH Elemans
Listeners locate potential mates using species-specific vocal signals. As tetrapods transitioned from water to land, lungs replaced gills, allowing expiration to drive sound production. Some frogs then returned to water. Here we explore how air-driven sound production changed upon re-entry to preserve essential acoustic information on species identity in the secondarily aquatic frog genus Xenopus. We filmed movements of cartilage and muscles during evoked sound production in isolated larynges. Results refute the current theory for...

Data from: Restriction-site-associated DNA sequencing reveals a cryptic viburnum species on the North American coastal plain

Elizabeth L. Spriggs, Deren A.R. Eaton, Patrick W. Sweeney, Caroline Schlutius, Erika J. Edwards, Michael J. Donoghue & Deren A R Eaton
Species are the starting point for most studies of ecology and evolution, but the proper circumscription of species can be extremely difficult in morphologically variable lineages, and there are still few convincing examples of molecularly-informed species delimitation in plants. We focus here on the Viburnum nudum complex, a highly variable clade that is widely distributed in eastern North America. Taxonomic treatments have mostly divided this complex into northern (V. nudum var. cassinoides) and southern (V....

Data from: Effect of aerobic exercise on cognition in younger adults: a randomized clinical trial

Yaakov Stern, Anna MacKay-Brandt, Seonjoo Lee, Paula McKinley, Kathleen McIntyre, Qolamreza Razlighi, Emil Agarunov, Matthew Bartels & Richard P. Sloan
Objective: To determine efficacy of aerobic exercise for cognitive function in younger healthy adults. Methods: In a randomized, parallel-group, observer-masked, community-based clinical trial, 132 cognitively normal individuals aged 20-67 with below median aerobic capacity were randomly assigned to one of two 6-month, four-times-weekly conditions: aerobic exercise and stretching/toning. Efficacy measures included: aerobic capacity; cognitive function in six domains (executive function, episodic memory, processing speed, language, and attention), everyday function, BMI and cortical thickness. Results: Aerobic...

Registration Year

  • 2018

Resource Types

  • Dataset


  • Columbia University
  • University of California, Berkeley
  • Northwestern University
  • Massachusetts General Hospital
  • Howard Hughes Medical Institute
  • City Of Hope National Medical Center
  • University of Alberta
  • University of Minnesota
  • New York University
  • Aarhus University