cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.2548486
title: S6 molecular dynamics simulation trajectories of tubulin in electric field: 1e8V/m, 2e8 V/m, 3e8 V/m, A1604

description: Molecular dynamics simulation trajectories of tubulin in electric field

traj_centered_08.xtc 1e8 V/m<br>
traj_centered_3_08.xtc  3e8 V/m<br>
traj_ricentrata_2_08.xtc  2e8 V/m
DOI: 10.22024/unikent/01.01.61
title: Moving Mountains: Overcoming the Individual Preference Effect: Supporting Data

description: SPSS data files supporting the 3 studies included in the Moving Mountains paper
DOI: 10.18430/m35epj
title: X-ray diffraction data for the crystal Structure of chromodomain of CBX7 in complex with inhibitor UNC3866 (5EPJ)
DOI: 10.18430/m35epk
title: X-ray diffraction data for the crystal Structure of chromodomain of CBX2 in complex with inhibitor UNC3866 (5EPK)
DOI: 10.18430/m35epl
title: X-ray diffraction data for the crystal Structure of chromodomain of CBX4 in complex with inhibitor UNC3866 (5EPL)
DOI: 10.18430/m35eq0
title: X-ray diffraction data for the crystal Structure of chromodomain of CBX8 in complex with inhibitor UNC3866 (5EQ0)
DOI: 10.18430/m36nb2
title: X-ray diffraction data for the cRYSTAL STRUCTURE OF ENOLASE FROM LEGIONELLA PNEUMOPHILA BOUND TO 2-PHOSPHOGLYCERIC ACID AND MAGNESIUM (6NB2)
DOI: 10.18430/m36nlx
title: X-ray diffraction data for the crystal Structure of Glyceraldehyde-3-phosphate Dehydrogenase from Naegleria fowleri with bound NAD (6NLX)
DOI: 10.5281/zenodo.2549615
title: Vision dataset for ColRobot WP6 use-case

description: A specific 2D sensing system, comprising of a 2D camera, a backlit feeder and its associated processing has been developed for the ColRobot kitting use-case. This sensing system is integrated with the gripper and the robot.

The objective of the sensing system is to detect and locate the kitting parts (notably screws, washers and nuts) in order to grasp them.

The sensing system must be able:


	To be rapidly reconfigured for parts of new dimensions (in case of evolution of the kitting specifications), without reprogramming.
	To be able to isolate parts among similar (but not identical) parts.
	To be able to avoid detecting parts that are overlapping.


To be able to avoid detecting parts that are too close to each other (clearance should be above 6mm).

Constraints are imposed on the processing algorithm to avoid grasping issues:


	Do not detect overlapping parts.
	Do not detect parts too close to another part (identical or not), i.e. keep 6mm clearance around any detected part.


All input pictures are taken with the same sensor, at the same distance to the backlit feeder.

Processing parameters are the same for all images.

The list of parts to be detected with their parameters is given below in the Data input section.

For all input images, all parts given in the input parameters are searched for and an output image is created if found highlighting a point of interest of the part, and an associated oriented frame.

On some input images, additional (non-referenced) parts are present in order to test the discrimination properties of the algorithm (false positives).

The dataset takes the following format:


	Input data:
	
		List of input images.
		Table of parameters to be given to the processing algorithm for each input image.
		
			For each part, a part type, and an ordered list of dimensions (semantics depending on the part type).
		
		
	
	
	Output data:
	
		A structured folder of output images
		
			For each input images, a clone of the input image is created for each part described in the input parameters, only if found, and highlighting:
			
				A point of interest (static in the part frame for a given part type).
				An associated frame describing the part orientation.
DOI: 10.5281/zenodo.2549616
title: Vision dataset for ColRobot WP6 use-case

description: A specific 2D sensing system, comprising of a 2D camera, a backlit feeder and its associated processing has been developed for the ColRobot kitting use-case. This sensing system is integrated with the gripper and the robot.

The objective of the sensing system is to detect and locate the kitting parts (notably screws, washers and nuts) in order to grasp them.

The sensing system must be able:


	To be rapidly reconfigured for parts of new dimensions (in case of evolution of the kitting specifications), without reprogramming.
	To be able to isolate parts among similar (but not identical) parts.
	To be able to avoid detecting parts that are overlapping.


To be able to avoid detecting parts that are too close to each other (clearance should be above 6mm).

Constraints are imposed on the processing algorithm to avoid grasping issues:


	Do not detect overlapping parts.
	Do not detect parts too close to another part (identical or not), i.e. keep 6mm clearance around any detected part.


All input pictures are taken with the same sensor, at the same distance to the backlit feeder.

Processing parameters are the same for all images.

The list of parts to be detected with their parameters is given below in the Data input section.

For all input images, all parts given in the input parameters are searched for and an output image is created if found highlighting a point of interest of the part, and an associated oriented frame.

On some input images, additional (non-referenced) parts are present in order to test the discrimination properties of the algorithm (false positives).

The dataset takes the following format:


	Input data:
	
		List of input images.
		Table of parameters to be given to the processing algorithm for each input image.
		
			For each part, a part type, and an ordered list of dimensions (semantics depending on the part type).
		
		
	
	
	Output data:
	
		A structured folder of output images
		
			For each input images, a clone of the input image is created for each part described in the input parameters, only if found, and highlighting:
			
				A point of interest (static in the part frame for a given part type).
				An associated frame describing the part orientation.
DOI: 10.5967/m0wq01xt
title: Greater Blue Earth and Lake Pepin sediment fingerprinting data

description: These data include grain size, meteoric Beryllium-10 concentrations, excess Lead-210 activities, and Cesium-137 activities for 158 sediment samples collected from within the Greater Blue Earth watershed and Lake Pepin, in southern Minnesota.
DOI: 10.5281/zenodo.2549595
title: Characteristics of Raindrop Size Distribution in Western and Eastern Parts of East Asian Summer Monsoon Rainband

description: The datasets used in our manuscript are provided here, along with the main code.
DOI: 10.5281/zenodo.2549596
title: Characteristics of Raindrop Size Distribution in Western and Eastern Parts of East Asian Summer Monsoon Rainband

description: The datasets used in our manuscript are provided here, along with the main code.
DOI: 10.5061/dryad.jd79404/5
title: Raw data for the targeted lipidomics study

description: This data is at metabolomics workbench. Accession number ST001124. http://www.metabolomicsworkbench.org
DOI: 10.5061/dryad.jd79404/6
title: Raw data for the untargeted metabolomics study

description: This data is at the metabolomics workbench. Accession number ST001094. http://www.metabolomicsworkbench.org
DOI: 10.5063/f1cf9ncj
title: Financing the sustainable management of Rwanda’s protected areas

description: Rwanda’s Nyungwe National Park is a biodiversity hotspot with the most endemic species in the ecoregion and the highest number of threatened species internationally. Nyungwe supplies critical ecosystem services to the Rwandan population including water provisioning and tourism services. Tourism in the Park has strong potential for financing enhanced visitor experiences and the sustainable management of the Park. The data for this research explores quantitatively the economic impacts of adjustment in Park visitation fees and tourism demand as a source of revenues to improve Park tourism opportunities and ongoing operations and maintenance. The methods developed in this research are novel in integrating the results of stated preference techniques with a regional computable general equilibrium modelling approach to capture multisectoral, direct, indirect and induced impacts. Such methods have strong potential for assessing revenue generation alternatives in other contexts where park managers are faced with the need to generate additional revenue for sustainable park management while facing diminishing budget allocations. Results of this analysis demonstrate that adjustment of Park fees has a relatively small impact on the regional economy and well-being when compared with a strategy aimed at generating increased tourism demand through investment in improving the visitor experience at Nyungwe National Park.This data archive contains regional (RCGE) and national (CGE) model runs based on the Integrated Economic–Environmental Modelling (IEEM) platform. Associated journal article can be found at https://doi.org/10.1080/09669582.2018.1456541 .
DOI: 10.17632/h9g6dzcspp.1
title: Data for: Experimental investigation of inductively coupled plasma etching on cemented carbides
DOI: 10.17632/mcg4r2gbzj.1
title: Data for: Power dynamics and integration in the Water-Energy-Food Nexus: learning lessons for transdisciplinary research in Cambodia
DOI: 10.6073/pasta/6ff7ea2732e8fc3a0418b56d9c7859c8
title: Trace Metal Content of Community Garden Soils in Metro Phoenix, AZ

description: Gardens are established in urban areas as a way to establish natural
  spaces and fresh food in low affluence communities. A potential
  problem of growing food in cities is that high levels of heavy metals
  can exist in soils from proximity to industries and longterm
  agriculture, which can be taken up my plants. This research measured
  soil and plant Pb and Cd, two of the most prolific and high concern
  metals, in order to determine if toxic levels beyond EPA standards of
  metals exist in Phoenix metro garden soils.
DOI: 10.25345/c5qk7j
title: MassIVE MSV000083363 - Tomato Proteogenomics
title: Proteins were extracted from tomato seedling (Heinz 1706) grown under 16-hour light/8-hour dark at 22 C for 4 days. Root consisted of ~3 cm from the tip and shoot consisted of cotyledons, meristems and ~1 cm hypocotyl.  Proteins were then digested with either Trypsin/LysC or GluC, independently.
DOI: 10.6073/pasta/d7f81b526bc17d44d438ade03c9e2146
title: PIE LTER study of marsh vegetation percent cover and biomass at the end of the growing season at Greenwood Creek, Ipswich, MA effluent enrichment and Clubhead Creek, Rowley, MA reference sites

description: End of growing season vegetation percent cover and biomass data for effluent enrichment vs. reference  marsh sites. Nutrient enrichment comes from the Ipswich Wastewater Treatment Facility on Greenwood Creek in Ipswich.  The marsh around Clubhead Creek, Rowley, MA was used as a reference.
DOI: 10.5281/zenodo.1486195
title: Mars novelty detection Mastcam labeled dataset

description: These datasets were used for experiments in the paper:<br> Kerner, H. R., Wagstaff, K. L., Bue, B. D., Wellington, Jacob, S., D. F., Bell III, J. F., Kwan, C., Ben Amor, H. Comparison of novelty detection methods for multispectral images in rover-based planetary exploration missions. Under review, 2020. All source images are publicly released Experiment Data Records (EDRs) archived by the Planetary Data System (PDS).
DOI: 10.5281/zenodo.1486196
title: Mars novelty detection Mastcam labeled dataset

description: These datasets were used for experiments in the paper:<br>
Kerner, H. R., Wellington, D. F., Wagstaff, K. L., Bell III, J. F., Ben Amor, H. Novelty Detection for Multispectral Images with Application to Planetary Exploration. In Proceedings of <em>Innovative Applications in Artificial Intelligence (IAAI/AAAI)</em>, 2019. 

The file cae_train.zip contains examples used for training the convolutional autoencoder. Each example is a Numpy array (.npy) of size 64x64x6 pixels.

The file novel_images.zip contains the 332 tiles labeled as "novel" for containing novel geologic features. Each example is a Numpy array (.npy) of size 64x64x6 pixels.

The file cnn_direct.zip contains examples used for fine-tuning pre-trained networks. Images are divided into "vis" (shorter wavelengths) and "nir" (longer wavelengths) and by their label of "typical" vs. "novel." These three-channel images are stored as .jpg files.

All files are named with the following convention: sequence_id_XX*_{R,L}Y_solZZZZ_N.npy where XX* is the sequence ID for the image, {R,L}Y indicates the right (R) or left (L) eye of the camera and the image number in the sequence (Y), and ZZZZ is the four-digit sol (Martian day since the rover began operations) the image was acquired on.

All source images are publicly released Experiment Data Records (EDRs) archived by the Planetary Data System (PDS).
DOI: 10.5281/zenodo.2549776
title: Species abundance information improves sequence taxonomy classification accuracy - HMP and NCBI data

description: Data used to test q2-clawback using taxonomic weights derived from shotgun sequencing experiments.

Includes reference sequences and taxonomies derived from the NCBI RefSeq database[1] and paired amplicon and shotgun sequencing results downloaded from the Human Microbiome Project[2].

References<br>
1. O’Leary, N. A. et al. en. Nucleic Acids Res. 44, D733–45 (2016).<br>
2. Huttenhower, C. et al. Nature 486, 207 (2012).
DOI: 10.5281/zenodo.2549777
title: Species abundance information improves sequence taxonomy classification accuracy - HMP and NCBI data

description: Data used to test q2-clawback using taxonomic weights derived from shotgun sequencing experiments.

Includes reference sequences and taxonomies derived from the NCBI RefSeq database[1] and paired amplicon and shotgun sequencing results downloaded from the Human Microbiome Project[2].

References<br>
1. O’Leary, N. A. et al. en. Nucleic Acids Res. 44, D733–45 (2016).<br>
2. Huttenhower, C. et al. Nature 486, 207 (2012).
DOI: 10.6073/pasta/5be533ecf42e0def499f3ddf88676d98
title: Lake Wingra: Fish Abundance

description: Data are collected annually to enable us to track the fish assemblages of Lake Wingra. Sampling is done at six littoral zone sites per lake with a beach seine, minnow or crayfish traps, and fyke nets, while a boat-mounted electrofishing system samples four littoral transects. Vertically hung gill nets are used to obtain two pelagic samples per lake from the deepest point. A trammel net samples across the thermocline at two nearshore sites per lake. Fish are identified to species. Lengths are measured for all fish caught, while weight and scale are collected from a subset. Derived data include catch per unit effort and size distribution by species, lake, and year. Protocol used to generate data: Gill net data have been standardized to a 24-hour sampling period. Assumptions used in the standardization are available from the investigators. Number caught for each species is summed over repetitions of a gear within a lake and over depth Sampling Frequency: annually Number of sites: 1
DOI: 10.6073/pasta/fe51a0b59af4901dcae6ff5b529eea82
title: Lake Wingra: Fish Lengths and Weights

description: Data are collected annually to enable us to track the fish assemblages of Lake Wingra. Sampling is done at six littoral zone sites per lake with a beach seine, minnow or crayfish traps, and fyke nets, while a boat-mounted electrofishing system samples four littoral transects. Vertically hung gill nets are used to obtain two pelagic samples per lake from the deepest point. A trammel net samples across the thermocline at two nearshore sites per lake. Fish are identified to species. Lengths are measured for all fish caught, while weight and scale are collected from a subset. Derived data include catch per unit effort and size distribution by species, lake, and year. Sampling Frequency: annually Number of sites: 1
DOI: 10.5281/zenodo.2549702
title: Data set associated with the paper "Implementation of the Vector Vorticity Dynamical Core on Cubed Sphere for Use in the Quasi-3-D Multiscale Modeling Framework"

description: New data set associated with the revision of the paper "Development of a Global Quasi-3-D Multiscale Modeling Framework: <br>
I. Vector Vorticity Model on Cubed Sphere as Cloud-Resolving Component"

The title of the paper has been changed to "Implementation of the Vector Vorticity Dynamical Core on Cubed Sphere for Use in the Quasi-3-D Multiscale Modeling Framework"

New simulated data set of the advection test is in the folder ADVEC_NEW; New simulated data set of the barotropic instability test is in the folder BARO_NEW; New simulated data set of the baroclinic instability test is in the folder BCL_NEW
DOI: 10.5281/zenodo.2549703
title: Data set associated with the paper "Implementation of the Vector Vorticity Dynamical Core on Cubed Sphere for Use in the Quasi-3-D Multiscale Modeling Framework"

description: New data set associated with the revision of the paper "Development of a Global Quasi-3-D Multiscale Modeling Framework: <br>
I. Vector Vorticity Model on Cubed Sphere as Cloud-Resolving Component"

The title of the paper has been changed to "Implementation of the Vector Vorticity Dynamical Core on Cubed Sphere for Use in the Quasi-3-D Multiscale Modeling Framework"

New simulated data set of the advection test is in the folder ADVEC_NEW; New simulated data set of the barotropic instability test is in the folder BARO_NEW; New simulated data set of the baroclinic instability test is in the folder BCL_NEW
DOI: 10.25345/c5kw48
title: MassIVE MSV000083364 - MudPIT analyses of the proteins co-purified with components of the LSD1 (KDM1A) transcriptional repressor complex and the non-canonical BAF complex, immuno-precipitated from MKL-1 and WaGa MCC cell lines
title: Protein Complexes Purification: Immunoprecipitations were performed with antibodies to LSD1 (2139; Cell signaling technology), INSM1 Mouse (SC-271408, Santa Cruz Biotechnology), RCOR2 (23969-1-AP; Proteintech Group), BRD9 (61537; Active Motif Rabbit), and normal Rabbit IgG (2729; Cell signaling technology). MKL-1 or WaGa suspension cells were harvested in EBC lysis buffer. INSM1 was also immunopurified from MKL-1 cells treated with the GSK-LSD1 inhibitor for 3 days.  For all IPs, clarified cell extract (100-300 mg) was incubated overnight at 4oC with 20ug antibodies crosslinked to 30 mg protein G agarose beads by dimethyl pimelimidate. Beads were washed with high salt buffer 5x, eluted with 0.2 M glycine pH 3 and neutralized with 1 M Tris pH 8.0. Proteins were precipitated with 1/5 TCA overnight at 4oC and washed 2x with cold acetone.
Multidimensional Protein Identification Technology: TCA-precipitated protein pellets were with Tris-HCl pH 8.5 8 M urea, followed by addition of TCEP (Pierce) and chloroacetamide (Sigma) to a final concentration of 5 mM and 10 mM, respectively. Proteins were digested using Endoproteinase Lys-C (Roche) at 37oC overnight. The samples were brought to a final concentration of 2 M urea and 2 mM CaCl2 and a second digestion was performed overnight at 37oC using trypsin (Promega). Digested peptides were loaded on a split-triple-phase fused-silica micro-capillary column and placed in-line with a linear ion trap mass spectrometer (LTQ, Thermo Scientific), coupled with a Quaternary Agilent 1100 Series HPLC system. A fully automated 10-step chromatography run was carried out. Each full MS scan (400-1600 m/z) was followed by five data-dependent MS/MS scans. The number of the micro scans was set to 1 both for MS and MS/MS. The settings were as follows: repeat count 2; repeat duration 30 s; exclusion list size 500 and exclusion duration 120 s, while the minimum signal threshold was set to 100. 
MS Data Processing: The MS/MS data set was searched using ProLuCID (v. 1.3.3) against 36628 non-redundant Homo sapiens proteins (downloaded from NCBI RefSeq 2016-06-10), 193 usual contaminants, and, to estimate false discovery rates (FDRs), 36821 randomized amino acid sequences derived from each NR protein. To account for alkylation by CAM, 57 Da were added statically to the cysteines. To account for oxidation, 16 Da were added as a differential modification to methionines. Peptide/spectrum matches were sorted and selected to an FDR less than 5% at the peptide and protein levels, using DTASelect in combination with swallow, an in-house software.
DOI: 10.5281/zenodo.3939508
title: Transient rip currents on an alongshore variable bathymetry

description: These codes and associated post-processed datasets can be used to plot all figures in the paper "Simulations of the surf zone eddy field and cross-shore exchange on a non-idealized bathymetry".
description: All post-processed data products are from simulations with a significant wave height of 1.8 m and with 20 degrees directional spread.
DOI: 10.5281/zenodo.3939507
title: Transient rip currents on an alongshore variable bathymetry

description: These codes and associated post-processed datasets can be used to plot all figures in the paper "Simulations of the surf zone eddy field and cross-shore exchange on a non-idealized bathymetry".
description: All post-processed data products are from simulations with a significant wave height of 1.8 m and with 20 degrees directional spread.
DOI: 10.5281/zenodo.2549806
title: Compositional heterogeneity and outgroup choice influence the internal phylogeny of the ants

description: Data files including matrices, analysis logs, and results from phylogenetic analyses for manuscript titled "Compositional heterogeneity and outgroup choice influence the internal phylogeny of the ants".
DOI: 10.17632/9z5y2kyh9w.1
title: Data for: Spermine Increases Bactericidal Activity of Silver-nanoparticles against Clinical Methicillin-Resistant Staphylococcus aureus

description: Raw data of this study
DOI: 10.5517/ccdc.csd.cc12lyvg
title: CCDC 1001326: Experimental Crystal Structure Determination

description: Related Article: Chiming Wang, Hailong Wang, Chenxi Liu, Dongdong Qi, Jianzhuang Jiang|2019|Inorg.Chem.Front.|6|654|doi:10.1039/C8QI01340C
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.cc1n67hl
title: CCDC 1525339: Experimental Crystal Structure Determination

description: Related Article: Zhong Zhang, Hai-Lou Li, Yue-Lin Wang, Guo-Yu Yang|2019|Inorg.Chem.|58|2372|doi:10.1021/acs.inorgchem.8b02805
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.cc1yvzxp
title: CCDC 1813404: Experimental Crystal Structure Determination

description: Related Article: Meimei Ma, Huanhuan Wang, Juju Wang, Lingyi Shen, Yanxia Zhao, Wen-Hua Xu, Biao Wu, Xiao-Juan Yang|2019|Dalton Trans.|48|2295|doi:10.1039/C9DT00028C
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.