cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6075/j00k26w6
title: Çatalhöyük, South Area, Building 6.3. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: 3-D reconstruction of Çatalhöyük, South Area, Building 6 phase 3, which was built directly above the latest phase of Building 17. The building had been already explored by Mellaart as Shrine VIII.10, but only its last occupation horizon was exposed at that time. Mellaart was dubious regarding the interpretation of this building as a ‘shrine’, as it seemed to lack the symbolic elaboration shown by its successors. More recent excavations undertaken in the 1990s revealed limited evidence of paintings (only monochromatic red panels in the northwestern corner of the main room) and uncovered ten burials. The model ofBuilding 6.3 features an oven located in the dirty area in the south. To notice the absence of the hearth, which was instead located in the side room, and multiple crawl holes to access the storage room
DOI: 10.6075/j0833qcq
title: Çatalhöyük, South Area, Building 17.D. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: 3-D reconstruction of Çatalhöyük, South Area, Building 17 phase D, which is later than phase 2.2. The wall paintings found in this building could not be attributed to any particular phase, as most of the wall plaster sequences remain unexcavated to the present day. For this reason, a decision was made to show a red-painted panel and a geometric motif on the eastern wall, which was the wall that was most often painted in the building, with no less than eleven painted layers throughout its use life, as showed by a cross-sectional analysis of its painted sequence. The model of Building 17.D features only one oven in the north part of the house and red panel along the east wall. The dirty area in the south only includes the hearth and a basin (south west corner).
DOI: 10.6075/j0cv4g34
title: Çatalhöyük, South Area, Building 17.2.2. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: 3-D reconstruction of Çatalhöyük, South Area, Building 17 phase 2.2. This building is the earliest Neolithic house excavated in the Shrine 10 sequence. Building 17 contained as many as twenty-two burials, and its walls, especially the eastern one, were painted multiple times with monochromatic red or black panels as well as with geometric motifs. The arrangement of internal features in the building changed rather frequently across its lifespan, in particular the location of its ovens: the building starts with two ovens located at the opposite southwest and northeast corners of the main room, the latter being rebuilt and slightly relocated multiple times; the middle phases of the building (B17.D) have a single oven in the northeastern corner; during the last phase (B17.B), instead, the only attested oven is located in the southwestern corner. The model of Building 17.2.2. includes two clay ovens in both the northeast and south areas of the house (which is a common feature in contemporaneous buildings in the settlement and not documented in later phases) and red panel and geometric motif on the east wall.
DOI: 10.6075/j0hm56tf
title: Çatalhöyük, Shrine 10 Sequence All Props. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: Collection of items used to decorate the Shrine 10 Sequence buildings included in this collection. Although their shapes and hypothetical location is based on discussion with Çatalhöyük archaeologists, these props are conjectural as no evidence on their finding in that location was documented by archaeologists. They are used to make the virtual reconstruction more experiential and realistic
DOI: 10.6075/j0r49p44
title: Çatalhöyük, South Area, Shrine VIA.10. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: 3-D reconstruction of Çatalhöyük, South Area, Shrine 10 in the level VI phase A (later phase). The last building in the sequence is Shrine VI.10, subdivided by Mellaart in two main phases of continuous occupation, VI.B and VI.A; during the later phase VI.A, the floor was elevated by approximately 60 centimeters and an oven was added to the southern wall (Mellaart 1967: 125). Major discontinuities between these two phases are substantiated by a reconfiguration of the access to storage rooms or other buildings through crawl holes located along the south wall in phase VI.B.10 and in the southern part of the east wall in phase VI.A.10 (see Fig. 12 and video 3) and by the reduced size and number of niches in the west wall of VI.A.10 when compared to VI.B.10. The model of this ‘shrine’ meticulously illustrates the northern platforms characterized by two lips dividing their surface into three parts, as well as by a bull pillar. The decoration of the building was dominated by cattle heads located in the central part of the eastern and northern walls and especially in the west wall, where three superimposed plastered bucrania were found in situ (see Mellaart 1963: plate XIII). A low red-painted panel ran all along the eastern and northern walls; red-painted decoration also appears near the bucranium on the eastern wall, interpreted as ‘the muzzle of the bull’ (Mellaart 1967: 126)
DOI: 10.6075/j0vt1qfc
title: Çatalhöyük, South Area, Shrine 10 Virtual Reconstruction - All Buildings. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: 3-D reconstruction of the entire Çatalhöyük Shrine 10 sequence of buildings (Buildings 17-6-24/VII.10-VI.B.10-VI.A.10) in the South Area. This sequence is one of the longest and most repetitiously reconstructed sequence of buildings ever documented at Çatalhöyük, encompassing the early and middle levels of the East mound. This 3-D reconstruction is based on multifaceted archaeological data, encompassing two very different investigation periods and research methodologies: the first being the legacy data from Mellaart’s excavations in the 1960s, upon which the reconstruction of Shrines VI.10 and VII.10 are based, comprised mainly of excavation plans, hypothetical reconstructions, textual descriptions and a limited photographic corpus; the other being a larger, more detailed and more diversified dataset produced by the ÇRP between the 1990s and the present—that we used for the reconstruction of Buildings 6 and 17. This second collection of data includes excavator’s discussions and diaries, GIS-based plans, a massive archive of photographs and videos, published annual reports (e.g. Çatalhöyük 2015), and final publication
DOI: 10.6075/j0mc8xdd
title: Çatalhöyük, South Area, Shrine VIB.10. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: 3-D reconstruction of Çatalhöyük, South Area, Shrine 10 in the level VI phase B (earlier phase). The last building in the sequence is Shrine VI.10, subdivided by Mellaart in two main phases of continuous occupation, VI.B and VI.A; during the later phase VI.A, the floor was elevated by approximately 60 centimeters and an oven was added to the southern wall (Mellaart 1967: 125). Major discontinuities between these two phases are substantiated by a reconfiguration of the access to storage rooms or other buildings through crawl holes located along the south wall in phase VI.B.10 and in the southern part of the east wall in phase VI.A.10 (see Fig. 12 and video 3) and by the reduced size and number of niches in the west wall of VI.A.10 when compared to VI.B.10. The model of this ‘shrine’ meticulously illustrates the northern platforms characterized by two lips dividing their surface into three parts, as well as by a bull pillar. The decoration of the building was dominated by cattle heads located in the central part of the eastern and northern walls and especially in the west wall, where three superimposed plastered bucrania were found in situ (see Mellaart 1963: plate XIII). A low red-painted panel ran all along the eastern and northern walls; red-painted decoration also appears near the bucranium on the eastern wall, interpreted as ‘the muzzle of the bull’ (Mellaart 1967: 126)
DOI: 10.6075/j04b2zn0
title: Çatalhöyük, South Area, Building 24 - Shrine VII.10. In Data from: A Glimpse through Time and Space: Visualizing Spatial Continuity and History-making at Çatalhöyük, Turkey

description: 3-D reconstruction of Çatalhöyük, South Area, Shrine VII. Lying directly on top of Building 6, Shrine VII.10 was almost completely excavated by Mellaart in the 1960s, with the exception of its walls and parts of two small side rooms to the northwest and southwest of the building, all of which were excavated in the 1990s with the name of Building 24. This building was almost entirely excavated by James Mellaart in the 1960s but its side storage room. The number of burials from this building and their details are not reported by Mellaart. This model features a bucranium hanging from the north wall, platforms arranged along the western, northern, and eastern walls and the oven located in the dirty area in the south part of the house
DOI: 10.6075/j0n58jrk
title: Data from: Trade-offs in motivating volunteer effort: Experimental evidence on voluntary contributions to science

description: This collection includes data used in the analysis reported in "Trade-offs in motivating volunteer effort: Experimental evidence on voluntary contributions to science" (Lyons & Zhang, 2019). The analysis reports on the results of a field experiment run on the world's largest crowd science platform, Zooniverse. Participants in the experiment were invited to contribute to a science project posted on Zooniverse, with one third of invitees randomly receiving additional information on the scientific output value of project contributions and another third randomly receiving information on the labor input value of project contributions. We examine the effects of this information on the quantity and quality of output, and on contributor characteristics as measured by a voluntary survey. We find significant heterogeneity in the motivations and ability of contributors to crowd science. Moreover, we find that both of the information interventions lead to significant decreases in the quantity and increases in the quality of contributions.
DOI: 10.6075/j0d798r5
title: IVT postprocessing model V 1.0. In Integrated Vapor Transport Forecast Models, Reanalysis, and Postprocessing Machine Learning Models for the North American West Coast [2008-2017]

description: Software Citations: In order to regrid the GFS model to the MERRA2 grid, climate data operators (CDO) package, remapcon function was used: CDO (V1.9.3): Schulzweida, U. (2019). CDO User Guide (Version 1.9.6). https://doi.org/10.5281/zenodo.2558193 The following packages were used to create the *.h5 models used to post-process the GFS forecasts towards the MERRA2 reanalysis. Tensorflow (V.1.13.1): Abadi, M., Agarwal, A., Barham, P., Brevdo, E., Chen, Z., Citro, C., … Zheng, X. (2016). TensorFlow: Large-Scale Machine Learning on Heterogeneous Distributed Systems. Retrieved from http://arxiv.org/abs/1603.04467 Keras (V.2.2.4): Chollet, F. (2015). Keras. GitHub Repository. Retrieved from https://github.com/fchollet/keras
description: This study tests the utility of convolutional neural networks (CNN) as a postprocessing framework for improving the National Center for Environmental Prediction’s Global Forecast System’s (GFS) integrated vapor transport (IVT) forecast field in the Eastern Pacific and Western United States. IVT is the characteristic field of atmospheric river (AR) events, which provide over 65% of yearly precipitation at some U.S. west-coast locations. When compared to GFS, the method reduces full field root mean squared error (RMSE) at forecast leads from 3 hours to 7 days (9-17% reduction), while increasing correlation between observations and predictions (0.5-12% increase). An RMSE decomposition shows that random error is predominantly reduced. Systematic error is also reduced up to 5-day forecast lead, but accounts for a smaller portion of RMSE. This work demonstrates that CNNs have the potential to improve forecast skill out to 7 days for precipitation events affecting the western U.S. This dataset includes: the calculated IVT from the National Center for Environmental Prediction’s GFS forecasts; the IVT from the National Aeronautics and Space Administration’s Modern-Era Retrospective Analysis for Research and Applications version 2 (MERRA-2) reanalysis; the Machine Learning Models used to Postprocess the GFS IVT. All data sets are for the North American West Coast and the Eastern Pacific.
DOI: 10.6075/j0k35s05
title: Scripps-KAUST model, Version 1.0. In Scripps-KAUST Regional Integrated Prediction System (SKRIPS)

description: Publication abstract: We developed a new regional coupled ocean–atmosphere model to study air--sea feedbacks. The coupled model is based on two open-source community model components: (1) MITgcm ocean model; (2) Weather Research and Forecasting (WRF) atmosphere model. The coupling between these components is performed using ESMF (Earth System Modeling Framework) and implemented according to National United Operational Prediction Capability (NUOPC) consortium. The coupled model is denominated the Scripps--KAUST Regional Integrated Prediction System~(SKRIPS).
DOI: 10.6075/j0xk8cwx
title: Data from: Increasing STEM Undergraduate Participation in Innovative Activities: Field Experimental Evidence

description: This collection includes data used in the analysis reported in "Increasing STEM Undergraduate Participation in Innovative Activities: Field Experimental Evidence" (Graff Zivin & Lyons, 2019). The data summarizes an innovation contest in which some participants were induced to participate (induce=1) and some self-selected into participation (induce=0). Among all participants, an encouragement intervention was randomly assigned (the "encouragement" variable captures this treatment status). Data include self-reported participant characteristics, performance in the contest, and self-reported effort.
DOI: 10.5517/ccdc.csd.cc217d7y
title: CCDC 1883939: Experimental Crystal Structure Determination

description: Related Article: Glen P. Junor, Erik A. Romero, Xi Chen, Rodolphe Jazzar, Guy Bertrand|2019|Angew.Chem.,Int.Ed.|58|2875|doi:10.1002/anie.201814081
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc217d8z
title: CCDC 1883940: Experimental Crystal Structure Determination

description: Related Article: Glen P. Junor, Erik A. Romero, Xi Chen, Rodolphe Jazzar, Guy Bertrand|2019|Angew.Chem.,Int.Ed.|58|2875|doi:10.1002/anie.201814081
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc217d90
title: CCDC 1883941: Experimental Crystal Structure Determination

description: Related Article: Glen P. Junor, Erik A. Romero, Xi Chen, Rodolphe Jazzar, Guy Bertrand|2019|Angew.Chem.,Int.Ed.|58|2875|doi:10.1002/anie.201814081
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6075/j0kw5d84
title: Data from: Seasonal cycle and annual reversal of the Somali Current in an eddy-resolving global ocean model

description: The dataset includes a subset of model output from a global 0.1-deg CORE-II forced POP simulation near the region of the Arabian Sea. The dataset contains fields including monthly sea surface height, wind stress, temperature, salinity and velocity fields averaged over 2005 - 2009 in the Arabian Sea, and daily velocity and all terms from the momentum equation.
DOI: 10.6075/j09g5k1f
title: Oceanographic data taken over a fringing coral reef near Makua Beach, Oahu, Hawai'i (2013)

description: This collection contains raw and processed data from a variety of instruments deployed throughout September 2013 over a fringing coral reef near Makua Beach, Oahu, Hawai'i. The data include velocity and pressure measurements from three Acoustic Doppler Current Profilers (ADCPs); temperature measurements from twenty-two Seabird 56s, deployed across two different thermistor-chains; pressure, temperature, and salinity from one Seabird 37 Microcat; pressure measurements from two Seabird 26s; and velocity and pressure measurements from an Acoustic Doppler Velocimeter (ADV). The entire array is constrained within a box measuring 2 km in the alongshore and 250 m in the cross-shore direction, between the 12 m and 20 m isobaths. For more information on the setup and processing, please refer to Arzeno et al. 2018 (https://doi.org/10.1029/2018JC014238).
DOI: 10.6075/j0qz289q
title: Data from: Structural basis for ligand modulation of the CCR2 conformational landscape

description: This object contains the molecular dynamics trajectories and analysis scripts used in the paper “Structural basis for ligand modulation of the CCR2 conformational landscape”. The purpose of this object is to share the simulation data used to build the Markov state models and the methods used to analyze the models and data.
description: The python and python package versions used to generate this data are: python version 2.7 pyemma version 2.4 mdtraj version 1.9.1 numpy version 1.11.0 matplotlib 2.0.0 pandas version 0.20.1 To create a virtual environment with these libraries, please use the envrionment files in this object.
DOI: 10.6075/j0gb228d
title: Data from: Implications of Byproduct Chemistry in Nanoparticle Synthesis

description: Abstract: Byproducts in metal nanoparticle synthesis can interfere with nanomaterial formation and self-assembly, as well as the perceived nanomaterial properties. Such syntheses go through a complicated series of intermediates, making it difficult to predict byproduct chemistry and challenging to determine experimentally. By a combined experimental and theoretical approach, the formation of organic byproducts is mapped out for the synthesis of gold nanoparticles with Good’s buffer 2-(N-morpholino)ethanesulfonic acid. Comprehensive nuclear magnetic resonance studies supported by mass spectrometry, ultraviolet–visible spectroscopy, and density functional theory reveal a number of previously unidentified byproducts formed by oxidation, C–N bond cleavage, and C–C bond formation. A reaction mechanism involving up to four consecutive oxidations is proposed. Oligomeric products with electronic transitions in the visible range are suggested. This approach can be extended broadly and lead to a more informed synthesis design and material characterization.
description: Gaussian 09, Revision D.01, M. J. Frisch, G. W. Trucks, H. B. Schlegel, G. E. Scuseria, M. A. Robb, J. R. Cheeseman, G. Scalmani, V. Barone, B. Mennucci, G. A. Petersson, H. Nakatsuji, M. Caricato, X. Li, H. P. Hratchian, A. F. Izmaylov, J. Bloino, G. Zheng, J. L. Sonnenberg, M. Hada, M. Ehara, K. Toyota, R. Fukuda, J. Hasegawa, M. Ishida, T. Nakajima, Y. Honda, O. Kitao, H. Nakai, T. Vreven, J. A. Montgomery, Jr., J. E. Peralta, F. Ogliaro, M. Bearpark, J. J. Heyd, E. Brothers, K. N. Kudin, V. N. Staroverov, T. Keith, R. Kobayashi, J. Normand, K. Raghavachari, A. Rendell, J. C. Burant, S. S. Iyengar, J. Tomasi, M. Cossi, N. Rega, J. M. Millam, M. Klene, J. E. Knox, J. B. Cross, V. Bakken, C. Adamo, J. Jaramillo, R. Gomperts, R. E. Stratmann, O. Yazyev, A. J. Austin, R. Cammi, C. Pomelli, J. W. Ochterski, R. L. Martin, K. Morokuma, V. G. Zakrzewski, G. A. Voth, P. Salvador, J. J. Dannenberg, S. Dapprich, A. D. Daniels, O. Farkas, J. B. Foresman, J. V. Ortiz, J. Cioslowski, and D. J. Fox, Gaussian, Inc., Wallingford CT, 2013. AMBER 16: D.A. Case, R.M. Betz, D.S. Cerutti, T.E. Cheatham, III, T.A. Darden, R.E. Duke, T.J. Giese, H. Gohlke, A.W. Goetz, N. Homeyer, S. Izadi, P. Janowski, J. Kaus, A. Kovalenko, T.S. Lee, S. LeGrand, P. Li, C. Lin, T. Luchko, R. Luo, B. Madej, D. Mermelstein, K.M. Merz, G. Monard, H. Nguyen, H.T. Nguyen, I. Omelyan, A. Onufriev, D.R. Roe, A. Roitberg, C. Sagui, C.L. Simmerling, W.M. Botello-Smith, J. Swails, R.C. Walker, J. Wang, R.M. Wolf, X. Wu, L. Xiao and P.A. Kollman (2016), AMBER 2016, University of California, San Francisco.
DOI: 10.15151/esrf-es-1118674713
title: Heidelberg BAG (HeidelBAG)

description: The HeidelBAG unites macromolecular crystallography of EMBL Heidelberg and the Heidelberg University Biochemistry Center (BZH). Central to all projects are large assemblies involved in chromosome organization and transcription control, in nuclear and cytoplasmic RNA regulation and modification, in translational control by ribosome associated factors or further in protein targeting, membrane protein insertion or post-translational modification. While O. Barabas from EMBL has left the BAG, Svetlana Dodonova and Sebastian Eustermann at EMBL will join and add projects on chromatin organization. Nearly all projects make use of integrated structural biology techniques (MX, SAXS/SANS, NMR, cryo-EM, AI approaches) that are combined with complementary methods, a strategy that warranties the continuous success of the BAG. More and more the detailed architecture and mechanistic description of entire macromolecular machines come into focus. The BAG reports on 17 publications and 30 PDB entries.
DOI: 10.15151/esrf-es-1118707810
title: Structural Biology in Marseille

description: The BAG groups 11 teams from 6 Marseille laboratories. It has lately been reorganized, with 2 PIs changing affiliation, and 2 laboratories revisiting internal organisation, but mutual understanding amongst all PIs provides a solid base for efficient organization of the BAG. Research revolves around infection, health and biotechnology. For the next beam time allocation period we could make efficient use of 10 MX and 2 SAXS shifts. This amount of beam time reflects what we had asked for in previous rounds. 3 teams combine structural biology with medicinal chemistry and beam time at MASSIF for large ligand-screening campaigns will mostly suit their purpose. Access to beamlines with tuneable energy will be instrumental for projects requiring experimental phasing. One team uses exclusively Bio-SAXS and allocation of one shift/session would be welcomed. Remote access for MX sessions has become very popular whereas scientists prefer to be on-site for Bio-SAXS experiments.