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Scientific Data

Michael Hanke, Nico Adelhöfer, Daniel Kottke, Vittorio Iacovella, Ayan Sengupta, Falko R Kaule, Roland Nigbur, Alexander Q Waite, Florian Baumgartner, Jörg Stadler
Here we present an update of the studyforrest ( dataset that complements the previously released functional magnetic resonance imaging (fMRI) data for natural language processing with a new two-hour 3 Tesla fMRI acquisition while 15 of the original participants were shown an audio-visual version of the stimulus motion picture. We demonstrate with two validation analyses that these new data support modeling specific properties of the complex natural stimulus, as well as a substantial within-subject BOLD response congruency in brain areas related to the processing of auditory inputs, speech, and narrative when compared to the existing fMRI data for audio-only stimulation...
October 25, 2016: Scientific Data
Chirag J Patel, Nam Pho, Michael McDuffie, Jeremy Easton-Marks, Cartik Kothari, Isaac S Kohane, Paul Avillach
The National Health and Nutrition Examination Survey (NHANES) is a population survey implemented by the Centers for Disease Control and Prevention (CDC) to monitor the health of the United States whose data is publicly available in hundreds of files. This Data Descriptor describes a single unified and universally accessible data file, merging across 255 separate files and stitching data across 4 surveys, encompassing 41,474 individuals and 1,191 variables. The variables consist of phenotype and environmental exposure information on each individual, specifically (1) demographic information, physical exam results (e...
October 25, 2016: Scientific Data
Ayan Sengupta, Falko R Kaule, J Swaroop Guntupalli, Michael B Hoffmann, Christian Häusler, Jörg Stadler, Michael Hanke
The studyforrest ( dataset is likely the largest neuroimaging dataset on natural language and story processing publicly available today. In this article, along with a companion publication, we present an update of this dataset that extends its scope to vision and multi-sensory research. 15 participants of the original cohort volunteered for a series of additional studies: a clinical examination of visual function, a standard retinotopic mapping procedure, and a localization of higher visual areas-such as the fusiform face area...
October 25, 2016: Scientific Data
Ursula Christmann, Anne-Louise Göhring
According to the metaphorical framing model, the use of metaphors in discussing an issue influences recipients' understanding and assessment of that issue. In a recent study, participants read a text referring to a city's crime problem either as a beast or a virus and then proposed counter-measures for that problem. Participants' suggestions differed depending on the metaphor they had read. This replication matched the original procedure regarding the content of the rhetorical figures (beast vs virus), the topic under focus (crime) and the measurement of the dependent variable (open-end format to collect participants' proposals)...
October 25, 2016: Scientific Data
Warren Tierney, Martin Schweinsberg, Jennifer Jordan, Deanna M Kennedy, Israr Qureshi, S Amy Sommer, Nico Thornley, Nikhil Madan, Michelangelo Vianello, Eli Awtrey, Luke Lei Zhu, Daniel Diermeier, Justin E Heinze, Malavika Srinivasan, David Tannenbaum, Eliza Bivolaru, Jason Dana, Clintin P Davis-Stober, Christilene du Plessis, Quentin F Gronau, Andrew C Hafenbrack, Eko Yi Liao, Alexander Ly, Maarten Marsman, Toshio Murase, Michael Schaerer, Christina M Tworek, Eric-Jan Wagenmakers, Lynn Wong, Tabitha Anderson, Christopher W Bauman, Wendy L Bedwell, Victoria Brescoll, Andrew Canavan, Jesse J Chandler, Erik Cheries, Sapna Cheryan, Felix Cheung, Andrei Cimpian, Mark A Clark, Diana Cordon, Fiery Cushman, Peter H Ditto, Alice Amell, Sarah E Frick, Monica Gamez-Djokic, Rebecca Hofstein Grady, Jesse Graham, Jun Gu, Adam Hahn, Brittany E Hanson, Nicole J Hartwich, Kristie Hein, Yoel Inbar, Lily Jiang, Tehlyr Kellogg, Nicole Legate, Timo P Luoma, Heidi Maibeucher, Peter Meindl, Jennifer Miles, Alexandra Mislin, Daniel C Molden, Matt Motyl, George Newman, Hoai Huong Ngo, Harvey Packham, P Scott Ramsay, Jennifer L Ray, Aaron M Sackett, Anne-Laure Sellier, Tatiana Sokolova, Walter Sowden, Daniel Storage, Xiaomin Sun, Jay J Van Bavel, Anthony N Washburn, Cong Wei, Erik Wetter, Carlos T Wilson, Sophie-Charlotte Darroux, Eric Luis Uhlmann
We present the data from a crowdsourced project seeking to replicate findings in independent laboratories before (rather than after) they are published. In this Pre-Publication Independent Replication (PPIR) initiative, 25 research groups attempted to replicate 10 moral judgment effects from a single laboratory's research pipeline of unpublished findings. The 10 effects were investigated using online/lab surveys containing psychological manipulations (vignettes) followed by questionnaires. Results revealed a mix of reliable, unreliable, and culturally moderated findings...
October 11, 2016: Scientific Data
Mariet Allen, Minerva M Carrasquillo, Cory Funk, Benjamin D Heavner, Fanggeng Zou, Curtis S Younkin, Jeremy D Burgess, High-Seng Chai, Julia Crook, James A Eddy, Hongdong Li, Ben Logsdon, Mette A Peters, Kristen K Dang, Xue Wang, Daniel Serie, Chen Wang, Thuy Nguyen, Sarah Lincoln, Kimberly Malphrus, Gina Bisceglio, Ma Li, Todd E Golde, Lara M Mangravite, Yan Asmann, Nathan D Price, Ronald C Petersen, Neill R Graff-Radford, Dennis W Dickson, Steven G Younkin, Nilüfer Ertekin-Taner
Previous genome-wide association studies (GWAS), conducted by our group and others, have identified loci that harbor risk variants for neurodegenerative diseases, including Alzheimer's disease (AD). Human disease variants are enriched for polymorphisms that affect gene expression, including some that are known to associate with expression changes in the brain. Postulating that many variants confer risk to neurodegenerative disease via transcriptional regulatory mechanisms, we have analyzed gene expression levels in the brain tissue of subjects with AD and related diseases...
October 11, 2016: Scientific Data
Brian Helmuth, Francis Choi, Allison Matzelle, Jessica L Torossian, Scott L Morello, K A S Mislan, Lauren Yamane, Denise Strickland, P Lauren Szathmary, Sarah E Gilman, Alyson Tockstein, Thomas J Hilbish, Michael T Burrows, Anne Marie Power, Elizabeth Gosling, Nova Mieszkowska, Christopher D G Harley, Michael Nishizaki, Emily Carrington, Bruce Menge, Laura Petes, Melissa M Foley, Angela Johnson, Megan Poole, Mae M Noble, Erin L Richmond, Matt Robart, Jonathan Robinson, Jerod Sapp, Jackie Sones, Bernardo R Broitman, Mark W Denny, Katharine J Mach, Luke P Miller, Michael O'Donnell, Philip Ross, Gretchen E Hofmann, Mackenzie Zippay, Carol Blanchette, J A Macfarlan, Eugenio Carpizo-Ituarte, Benjamin Ruttenberg, Carlos E Peña Mejía, Christopher D McQuaid, Justin Lathlean, Cristián J Monaco, Katy R Nicastro, Gerardo Zardi
At a proximal level, the physiological impacts of global climate change on ectothermic organisms are manifest as changes in body temperatures. Especially for plants and animals exposed to direct solar radiation, body temperatures can be substantially different from air temperatures. We deployed biomimetic sensors that approximate the thermal characteristics of intertidal mussels at 71 sites worldwide, from 1998-present. Loggers recorded temperatures at 10-30 min intervals nearly continuously at multiple intertidal elevations...
October 11, 2016: Scientific Data
Amaia A Rodeles, David Galicia, Rafael Miranda
The study of freshwater fish species biodiversity and community composition is essential for understanding river systems, the effects of human activities on rivers, and the changes these animals face. Conducting this type of research requires quantitative information on fish abundance, ideally with long-term series and fish body measurements. This Data Descriptor presents a collection of 12 datasets containing a total of 146,342 occurrence records of 41 freshwater fish species sampled in 233 localities of various Iberian river basins...
October 11, 2016: Scientific Data
Melissa Reyes-Fox, Heidi Steltzer, Daniel R LeCain, Gregory S McMaster
Atmospheric CO2 concentrations have been steadily increasing since the Industrial Era and contribute to concurrent increases in global temperatures. Many observational studies suggest climate warming alone contributes to a longer growing season. To determine the relative effect of warming on plant phenology, we investigated the individual and joint effects of warming and CO2 enrichment on a mixed-grass prairie plant community by following the development of six common grassland species and recording four major life history events...
October 11, 2016: Scientific Data
Tonatiuh Pena Centeno, Orr Shomroni, Magali Hennion, Rashi Halder, Ramon Vidal, Raza-Ur Rahman, Stefan Bonn
Recent evidence suggests that the formation and maintenance of memory requires epigenetic changes. In an effort to understand the spatio-temporal extent of learning and memory-related epigenetic changes we have charted genome-wide histone and DNA methylation profiles, in two different brain regions, two cell types, and three time-points, before and after learning. In this data descriptor we provide detailed information on data generation, give insights into the rationale of experiments, highlight necessary steps to assess data quality, offer guidelines for future use of the data and supply ready-to-use code to replicate the analysis results...
October 11, 2016: Scientific Data
Steven A Lopez, Edward O Pyzer-Knapp, Gregor N Simm, Trevor Lutzow, Kewei Li, Laszlo R Seress, Johannes Hachmann, Alán Aspuru-Guzik
The Harvard Organic Photovoltaic Dataset (HOPV15) presented in this work is a collation of experimental photovoltaic data from the literature, and corresponding quantum-chemical calculations performed over a range of conformers, each with quantum chemical results using a variety of density functionals and basis sets. It is anticipated that this dataset will be of use in both relating electronic structure calculations to experimental observations through the generation of calibration schemes, as well as for the creation of new semi-empirical methods and the benchmarking of current and future model chemistries for organic electronic applications...
September 27, 2016: Scientific Data
Nora Escribano, David Galicia, Arturo H Ariño, Carmen Escala
We describe the pellet sampling data set from the Vertebrate Collection of the Museum of Zoology of the University of Navarra. This data set compiles all information about small mammals obtained from the analysis of owl pellets. The collection consists on skulls, mandibles, and some skeletons of 36 species of more than 72,000 georeferenced specimens. These specimens come from the Iberian Peninsula although most samples were collected in Navarra, a highly diverse transitional area of 10,000 kilometre square sitting across three biogeographical regions...
September 27, 2016: Scientific Data
Charles Cernay, Elise Pelzer, David Makowski
Grain legume crops are a significant component of the human diet and animal feed and have an important role in the environment, but the global diversity of agricultural legume species is currently underexploited. Experimental assessments of grain legume performances are required, to identify potential species with high yields. Here, we introduce a dataset including results of field experiments published in 173 articles. The selected experiments were carried out over five continents on 39 grain legume species...
September 27, 2016: Scientific Data
Shan-Ce Niu, Qing Xu, Guo-Qiang Zhang, Yong-Qiang Zhang, Wen-Chieh Tsai, Jui-Ling Hsu, Chieh-Kai Liang, Yi-Bo Luo, Zhong-Jian Liu
Orchids are renowned for their spectacular flowers and ecological adaptations. After the sequencing of the genome of the tropical epiphytic orchid Phalaenopsis equestris, we combined Illumina HiSeq2000 for RNA-Seq and Trinity for de novo assembly to characterize the transcriptomes for 11 diverse P. equestris tissues representing the root, stem, leaf, flower buds, column, lip, petal, sepal and three developmental stages of seeds. Our aims were to contribute to a better understanding of the molecular mechanisms driving the analysed tissue characteristics and to enrich the available data for P...
September 27, 2016: Scientific Data
Esther Singer, Bill Andreopoulos, Robert M Bowers, Janey Lee, Shweta Deshpande, Jennifer Chiniquy, Doina Ciobanu, Hans-Peter Klenk, Matthew Zane, Christopher Daum, Alicia Clum, Jan-Fang Cheng, Alex Copeland, Tanja Woyke
Generating sequence data of a defined community composed of organisms with complete reference genomes is indispensable for the benchmarking of new genome sequence analysis methods, including assembly and binning tools. Moreover the validation of new sequencing library protocols and platforms to assess critical components such as sequencing errors and biases relies on such datasets. We here report the next generation metagenomic sequence data of a defined mock community (Mock Bacteria ARchaea Community; MBARC-26), composed of 23 bacterial and 3 archaeal strains with finished genomes...
September 27, 2016: Scientific Data
Richard Tran, Zihan Xu, Balachandran Radhakrishnan, Donald Winston, Wenhao Sun, Kristin A Persson, Shyue Ping Ong
The surface energy is a fundamental property of the different facets of a crystal that is crucial to the understanding of various phenomena like surface segregation, roughening, catalytic activity, and the crystal's equilibrium shape. Such surface phenomena are especially important at the nanoscale, where the large surface area to volume ratios lead to properties that are significantly different from the bulk. In this work, we present the largest database of calculated surface energies for elemental crystals to date...
2016: Scientific Data
Xin Chen, Tushar Chakravarty, Yiqiang Zhang, Xiaojin Li, Jiang F Zhong, Charles Wang
The molecular basis underlying the dedifferentiation of mammalian adult cardiomyocytes (ACMs) into myocyte-derived cardiac progenitor cells (mCPCs) during cardiac tissue regeneration is poorly understood. We present data integrating single-cell transcriptome and whole-genome DNA methylome analyses of mouse mCPCs to understand the epigenomic reprogramming governing their intrinsic cellular plasticity. Compared to parental cardiomyocytes, mCPCs display epigenomic reprogramming with many differentially-methylated regions, both hypermethylated and hypomethylated, across the entire genome...
2016: Scientific Data
Lizhe Wang, Lajiao Chen
No abstract text is available yet for this article.
2016: Scientific Data
Alessandro Bonforte, Sonia Fagone, Carmelo Giardina, Simone Genovese, Gianpiero Aiesi, Francesco Calvagna, Massimo Cantarero, Orazio Consoli, Salvatore Consoli, Francesco Guglielmino, Biagio Puglisi, Giuseppe Puglisi, Benedetto Saraceno
No abstract text is available yet for this article.
2016: Scientific Data
Jianwei Zhang, Ling-Ling Chen, Shuai Sun, Dave Kudrna, Dario Copetti, Weiming Li, Ting Mu, Wen-Biao Jiao, Feng Xing, Seunghee Lee, Jayson Talag, Jia-Ming Song, Bogu Du, Weibo Xie, Meizhong Luo, Carlos Ernesto Maldonado, Jose Luis Goicoechea, Lizhong Xiong, Changyin Wu, Yongzhong Xing, Dao-Xiu Zhou, Sibin Yu, Yu Zhao, Gongwei Wang, Yeisoo Yu, Yijie Luo, Beatriz Elena Padilla Hurtado, Ann Danowitz, Rod A Wing, Qifa Zhang
Over the past 30 years, we have performed many fundamental studies on two Oryza sativa subsp. indica varieties, Zhenshan 97 (ZS97) and Minghui 63 (MH63). To improve the resolution of many of these investigations, we generated two reference-quality reference genome assemblies using the most advanced sequencing technologies. Using PacBio SMRT technology, we produced over 108 (ZS97) and 174 (MH63) Gb of raw sequence data from 166 (ZS97) and 209 (MH63) pools of BAC clones, and generated ~97 (ZS97) and ~74 (MH63) Gb of paired-end whole-genome shotgun (WGS) sequence data with Illumina sequencing technology...
2016: Scientific Data
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