cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3606395
title: Excel mapping tools for 2019 zoonoses data reporting

description: The main objective of the mapping tool is to provide a simple and useable platform for Member states and other reporting countriesto map their country-specific standard terminology to that used by EFSA and to enable the production of an XML file for the submission of sample or aggregated-based zoonoses monitoring data via the Data Collection Framework (DCF). The catalogues and the specific hierarchy of each data model (AMR, ESBL, PRV, FBO, POP and DST) are already inserted into each of the specific mapping tool. Specific Excel mapping tools correspond to each of the six data models are available. You can choose between the dynamic or the manual version of the tool.
description: EU; XLS; zoonoses_support@efsa.europa.eu
DOI: 10.5281/zenodo.3606394
title: Excel mapping tools for 2019 zoonoses data reporting

description: The main objective of the mapping tools is to provide a simple and useable platform for Member states and other reporting countries to map their country-specific standard terminology to that used by EFSA and to enable the production of an XML file for the submission of sample or aggregated-based zoonoses monitoring data via the Data Collection Framework (DCF). The catalogues and the specific hierarchy of each data model (AMR, ESBL, PRV, FBO, POP, DST and SSD2 for Echinococcus multilocularis) are already inserted into each of the specific mapping tool. Specific Excel mapping tools correspond to each of the seven data models are available. You can choose between the dynamic or the manual version of the tool for the first six data models. The Emulti_SSD2_tool can be used to report sample-based results of Echinococcus multilocularis under the Commission Delegated Regulation (EU) 2018/772.
description: EU; XLS; zoonoses_support@efsa.europa.eu
DOI: 10.25550/1-8ab4
title: Gene expression profiling of the mandibular arch in mice with a conditional inactivation of Alk5 at embryonic day E11.5.

description: The overall goal of this project is to investigate the role of TGF-beta signaling in tissue-tissue interactions between myogenic precursors of craniofacial muscles and cranial neural crest cells (CNCCs). Here, we conducted gene expression profiling of the mandibular arch from mice at embryonic day E11.5 with a CNCC-specific conditional inactivation of the TGF-beta receptor type 1 gene Alk5. These mice provide a model of microglossia as well as disrupted extraocular and masticatory muscle development, which are congenital birth defects commonly observed in several syndromic conditions.
DOI: 10.25550/1-7330
title: Bantu CNV Dataset

description: Copy number variations (CNVs) account for a significant proportion of inter-individual genomic variation. However, a majority of genomic variation studies have focused on single nucleotide variations (SNVs), with limited genome-wide analysis of CNVs in large cohorts, especially in populations that are under-represented in genetic studies including people of African descent. In this study, we carried out a genome-wide CNV analysis in &gt; 3400 healthy Bantu Africans from Tanzania using high density (&gt; 2.5 million probes) genotyping arrays. We identified over 400,000 CNVs larger than 1 kilobasepairs (kb), for an average of 120 CNVs per individual. Notably, we detected 4,823 CNVs in this cohort, which have not been reported previously. Further, we detected 866 large CNVs (&gt; or =300 kb), which overlapped with genomic regions associated with multiple congenital anomaly syndromes, including Prader-Willi/Angelman syndrome (Type1) and 22q11.2 deletion syndrome. Furthermore, several of the common CNVs seen in our cohort (&gt; or = 5 %) overlap with genes previously associated with developmental disorders. These findings may help to refine the phenotypic outcomes and penetrance of variations affecting genes and genomic regions previously implicated in diseases, mainly in people of European descent. Our study provides one of the largest datasets of CNVs from individuals of African ancestry, enabling improved clinical evaluation and disease-association of CNVs observed in research and clinical studies in African populations.
DOI: 10.25550/1-779p
title: RNAseq of Dlx5-/- and littermate controls at E14.5

description: Craniofacial development depends on cell-cell interactions, coordinated cellular movement and differentiation under the control of regulatory gene networks, which include the distal-less (Dlx) gene family. However, the functional significance of Dlx5 in patterning the oropharyngeal region has remained unknown. Here we show that loss of Dlx5 leads to a shortened soft palate and an absence of the levator veli palatini, palatopharyngeus, and palatoglossus muscles that are derived from the 4th pharyngeal arch (PA), but the tensor veli palatini, derived from the 1st PA, is unaffected. Dlx5-positive cranial neural crest (CNC) cells are in direct contact with myoblasts derived from the pharyngeal mesoderm, and Dlx5 disruption leads to altered proliferation and apoptosis of CNC and muscle progenitor cells. Moreover, the FGF10 pathway is downregulated in Dlx5-/- mice, and activation of FGF10 signaling rescues CNC cell proliferation and myogenic differentiation in these mutant mice. Collectively, our results indicate that Dlx5 plays critical roles in patterning of the oropharyngeal region and development of muscles derived from the 4th PA mesoderm in the soft palate, likely via interactions between CNC-derived and myogenic progenitor cells.
DOI: 10.25550/1-77ar
title: RNAseq of Nfic-/- and littermate Nfic+/- control at PN4 days

description: This study aimed to perform transcriptome profiling of Nfic-/- and corresponding control tooth germ at root initiation stage to identify differentially expressed for key regulators of root development. Coordination between the Hertwig’s Epithelial Root Sheath (HERS) and apical papilla (AP) is crucial for proper root development process. The Hedgehog (Hh) signaling pathway and Nfic are both involved in tooth root development.
DOI: 10.25550/2a7j
title: ChIP-seq of multiple histone marks and RNA-seq from CS18 human embryonic face tissue

description: ChIP-seq, RNA-seq and ATAC-seq to identify non-coding regulatory elements (enhancers) active during craniofacial development. This record contains sequencing data from one CS18 sample (12695); multiple embryos at CS18 and other stages of human development are being sequenced in parallel. **This is restricted-access human data.** To gain access to this data, you must first go through the [process outlined here](/odocs/data-guidelines/).
DOI: 10.25550/1-716c
title: Activity of mouse neural crest enhancer near Pkdcc in E11.5 transgenic mouse embryo– Tg(mm10_chr17:83129127-83129628::LacZ).

description: Tg(mm10_chr17:83129127-83129628::LacZ) mouse neural crest enhancer with reproducible activity in the frontonasal process and dorsal root ganglia. Two embryos also show weak activity in the periocular mesenchyme and prominences of the 1st branchial arch.
DOI: 10.25550/1-717a
title: Activity of human neural crest enhancer near THBS1 in E11.5 transgenic mouse embryo – Tg(hg19_chr15:39474113-39474612::LacZ).

description: Tg(hg19_chr15:39474113-39474612::LacZ) human neural crest enhancer with biased activity in frontonasal process when compared to the orthologous chimpanzee sequence. There is also reproducible staining in the anterior forebrain, posterior maxillary prominence of the 1st branchial arch, and midgut.
DOI: 10.25550/1-718g
title: Activity of chimpanzee neural crest enhancer near THBS1 in E11.5 transgenic mouse embryo – Tg(panTro4_chr15:36056787-36057287::LacZ).

description: Tg(panTro4_chr15:36056787-36057287::LacZ) demonstrates no reproducible enhancer activity at E11.5.
DOI: 10.25550/1-715g
title: Activity of Altai Neanderthal neural crest enhancer in E11.5 transgenic mouse embryo, orthologous to human enhancer near PKDCC.

description: Altai neural crest enhancer with weak reproducible activity in the nasolacrimal groove, 2nd branchial arch, and dorsal root ganglia.
DOI: 10.25550/1-70y8
title: Activity of hominin neural crest enhancer in E11.5 transgenic mouse embryo; orthologous to human enhancer near COL13A1.

description: Hominin neural crest enhancer with reproducible activity in the forebrain, midbrain, hindbrain, periocular mesenchyme, frontonasal process, maxillary and mandibular prominences of the 1st branchial arch, 2nd branchial arch, proximal limb buds, and dorsal root ganglia.
DOI: 10.25550/1-712g
title: Activity of hominin neural crest enhancer in E11.5 transgenic mouse embryo, orthologous to human enhancer near RABGEF1.

description: Hominin neural crest enhancer with reproducible activity in the midbrain, hindbrain, frontonasal process, maxillary prominence of the 1st branchial arch, and cranial nerves.
DOI: 10.25550/1-714g
title: Activity of chimpanzee neural crest enhancer near PKDCC in E11.5 transgenic mouse embryo – Tg(panTro4_chr2:42628575-42629074::LacZ).

description: Tg(panTro4_chr2:42628575-42629074::LacZ) chimp neural crest enhancer with biased activity in the frontonasal process, distal maxillary and mandibular components of the 1st branchial arch, and periocular mesenchyme when compared to the orthologous human enhancer. There is also reproducible activity in the dorsal root ganglia and neural tube.
DOI: 10.25550/1-71hy
title: Sagittal Suture, WT and Fgfr2+/S252W (Apert syndrome mouse model), E16.5 and E18.5

description: RNA-Seq libraries are from laser capture microdissections of C57BL/6J Fgfr2+/+ (W) and C57BL/6J Apert syndrome EIIA-Cre+;Fgfr2+/S252W (A) mice, at development stages TS24/E16.5 (6) and TS26/E18.5 (8), from the sagittal suture (L), with 5 biological replicates (1-5), of the suture mesenchyme (SM) and parietal and interparietal osteogenic fronts (PA, IP). “W8S1SM”, for example, indicates WT, E18.5, sagittal suture, replicate 1, suture mesenchyme.
DOI: 10.25550/1-70x0
title: Activity of Altai neural crest enhancer in E11.5 transgenic mouse embryo, orthologous to human enhancer near COL13A1.

description: Altai neural crest enhancer with reproducible activity in the forebrain, midbrain, hindbrain, frontonasal process, periocular mesenchyme, trigeminal (V) ganglia, 2nd branchial arch, anterior limb buds, dorsal root ganglia, and neural tube.
DOI: 10.25550/1-7780
title: Craniofacial Atlas ChIP-seq data
DOI: 10.25550/1-70ze
title: Activity of human neural crest enhancer intragenic within RABGEF1 in E11.5 transgenic mouse embryo – Tg(hg38_chr7:66757595-66758499::LacZ).

description: Tg(hg38_chr7:66757595-66758499::LacZ) human neural crest enhancer with biased activity in the frontonasal process and cranial nerves when compared to the orthologous chimp enhancer. It also demonstrates reproducible activity in the maxillary prominence of the 1st branchial arch and periocular mesenchyme.
DOI: 10.25550/1-710g
title: Activity of chimpanzee neural crest enhancer near RABGEF1 in E11.5 transgenic mouse embryo – Tg(panTro4_chr7:65259940-65260846::LacZ).

description: Tg(panTro4_chr7:65259940-65260846::LacZ) chimp neural crest enhancer with reproductible activity in the frontonasal process and maxillary prominence of the 1st branchial arch. The orthologous human enhancer demonstrates activity in overlapping domains, although activity appears to be consistently stronger.
DOI: 10.25550/1-7192
title: Activity of predicted Altai Neaderthal neural crest enhancer in E11.5 transgenic mouse embryo, orthologous to the human enhancer located near THBS1.

description: Altai predicted neural crest enhancer with no reproducible enhancer activity in at least three embryos. The only two LacZ+ embryos (out of 13 transgenic embryos) show very similar staining in the frontonasal process, maxillary prominence of the 1st branchial arch, and cranial nerves.
DOI: 10.25550/1-713j
title: Activity of human neural crest enhancer near PKDCC in E11.5 transgenic mouse embryo – Tg(hg38_chr2:41954152-41954651::LacZ).

description: Tg(hg38_chr2:41954152-41954651::LacZ) human neural crest enhancer with weak reproducible activity in the nasolacrimal groove and dorsal root ganglia. Conversely, the orthologous chimp enhancer demonstrates strong, consistent activity in multiple domains.
DOI: 10.25550/1-778p
title: Histology and schematic overview of mouse soft palate development

description: Orofacial clefting is the most common congenital craniofacial malformation affecting several distinct anatomical regions including the upper lip and hard and soft palate. Numerous studies revealed the etiology of orofacial clefting is complex involving genetic or environmental factors or their combination. Hence, it is essential to investigate the regulatory mechanisms of orofacial clefting. Our previous studies have suggested that humans and mice share similar orofacial development, anatomy and function, therefore, the mouse is an excellent model to study the regulatory mechanism of orofacial clefting to improve our understanding of orofacial development.
DOI: 10.25550/1-77a8
title: Histology and schematic overview of mouse tooth root development

description: The tooth root is a critical part of our dentition. The formation of a functional root depends on many factors including epithelial-mesenchymal interactions and integration of the root with the jaw bone, blood supply and nerve innervations. Understanding the tooth root development is of great interest in the field of regenerative medicine. Published figure available in PMID 28143844.
DOI: 10.23729/9b209b52-2ea0-4d89-b059-062b734142d8
title: SMEAR II Lake Kuivajärvi meteorology, water quality and eddy covariance

description: This dataset contains time series of meteorology, water quality and turbulent exchange of CO2, CH4, heat and momentum measured at SMEAR II Lake Kuivajärvi site near Hyytiälä Forestry Field Station, Juupajoki, Finland during years 2012–2018.
DOI: 10.15468/jnxmff
title: Three new ghost moths of the genus Oxycanus Walker, 1856 from Australia (Lepidoptera: Hepialidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Beaver, Ethan P., Moore, Michael D., Velasco-Castrillón, Alejandro, Stevens, Mark I. (2020): Three new ghost moths of the genus Oxycanus Walker, 1856 from Australia (Lepidoptera: Hepialidae). Zootaxa 4732 (3): 351-374, DOI: https://doi.org/10.11646/zootaxa.4732.3.1
DOI: 10.6084/m9.figshare.11845551.v13
title: Simulated zero-crossing wave period (3-hourly, 150a) from FIO-ESM v2.0 1pctCO2 experiment r1i1p1f1

description: Simulated zero-crossing wave period (3-hourly, 150a) from FIO-ESM v2.0 1pctCO2 experiment (CO2 prescribed to increase at 1% per year) r1i1p1f1, which is branch from Jan 1, 301 of piControl experiment. The grid, named gx1v6, is the displaced pole (the North Pole displaced to the Greenland) grid with 1.1 degree in longitude and 0.27-0.54 degree in latitude.
DOI: 10.15468/83tgvt
title: A new species of Loxoblemmus Saussure, 1877 and a new distribution record of the genus Stephoblemmus Saussure, 1877 from China (Orthoptera: Gryllidae; Gryllinae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Qiao, Min, Zhang, Tao, Wang, Yan, Ma, Libin (2020): A new species of Loxoblemmus Saussure, 1877 and a new distribution record of the genus Stephoblemmus Saussure, 1877 from China (Orthoptera: Gryllidae; Gryllinae). Zootaxa 4732 (3): 481-487, DOI: https://doi.org/10.11646/zootaxa.4732.3.10
DOI: 10.15468/51vasw
title: A new species of Amystax Roelofs, 1873 endemic to the mountainous area of the Yakushima World Natural Heritage site, Kyushu, Japan

description: This dataset contains the digitized treatments in Plazi based on the original journal article Kojima, Hiroaki, Yôro, Takeshi (2020): A new species of Amystax Roelofs, 1873 endemic to the mountainous area of the Yakushima World Natural Heritage site, Kyushu, Japan. Zootaxa 4732 (3): 495-500, DOI: https://doi.org/10.11646/zootaxa.4732.3.12
DOI: 10.5258/soton/d1243
title: Dataset for: Thermal Performance and Physicochemical Stability of Silver Nanoprism-based Nanofluids for Direct Solar Absorption

description: Dataset supports: Kimpton, H. J. et al. (2020). Thermal Performance and Physicochemical Stability of Silver Nanoprism-based Nanofluids for Direct Solar Absorption. Solar Energy.
DOI: 10.21227/2fmv-ys90
title: Cooking activity dataset with macro and micro activities

description: This dataset features cooking activities with recipes and gestures labeled. The data has been collected using two smartphones (right arm and left hip), two smartwatches (both wrists) and one motion capture system with 29 markers. There were 4 subjects who prepared 3 recipes (sandwich, fruit salad, cereal) 5 times each. The subjects followed a script for each recipe but acted as naturally as possible
DOI: 10.17632/dcj3yvzybr.4
title: Global horizontal irradiance forecasting code and data

description: This dataset contains the code, data and results obtained by forecasting the GHI using a deep neural network. There are four main folders in the project: Data This folder contains all the data used from the two studied locations: UJI (latitude=39.99º, longitude=-0.06º) and La Celle (latitude=40.4º, longitude=6.0º). Sorted by year, month and day, each location has three kinds of data: • The files named as just a number are 151x151 irradiance estimates matrices centered in the same location obtained from http://msgcpp.knmi.nl.The spatial resolution is 0.03º for both latitude and longitude. • The files named Real_ are the irradiance measurements at the location • The files named CopernicusClear_ are the clear sky estimates from the CAMS McClear model Each file contains the 96 15-minute samples for the same day in Matlab format and UTC time. Code All the python scripts used to train the neural networks and perform the forecasts. The main files are: • tf1.yml: List of the modules and versions used. A clean Anaconda environment created from this file can run all the code in the project. • learnRadiation.py: The script to train a new model. Changing the variables “paper_model_name” and “location”. The first variable selects the kind of model to fit and the second one the training location. • predictOnly.py: Loads a trained model and performs the forecast. Notice that the model and location must match the ones used to train the model stored in the “training_path” folder Models This folder contains all the trained models and their forecasting results. There is also a training folder to contain the last trained model. Logdir This folder stores Tensorboard files during training A new model can be trained using “learnRadiation.py”. This script has three parameters • location: Selects the location where the model will be trained (UJI or LaCelle) • paper_model_name: This sets the inputs to match the ones used in the models from the article. • training_path: The folder to save the trained model “predictOnly.py” script allows performing the forecasts. It is important to set the same parameters as in the “learnRadiation.py” script. This program will generate the predictions and save them in the model folder. It also plots some days, which can be modified at the bottom of the script. For instance for UJI and model TOA & all real we would run: "python learnRadiation.py TOAallreal UJI training" This will train the neural network and save the results in the folder models/training. After this, we would generate the results and plot some days using: “python predictOnly.py TOAallreal UJI training” This will save the forecasts and real values in the training folder and show figures with 1 to 6 hour forecasts The models used for the article can also be evaluated by using predictOnly.py and targeting their folders. For instance, to evaluate the TOA & all real model used in the article, this command must be used: “python predictOnly.py TOAallreal UJI RtoaAllReal”
DOI: 10.15468/raa8v2
title: Another new Cyrtodactylus (Squamata: Gekkonidae) from Guwahati, Assam, India

description: This dataset contains the digitized treatments in Plazi based on the original journal article Purkayastha, Jayaditya, Das, Madhurima, Bohra, Sanath Chandra, Bauer, Aaron M., Agarwal, Ishan (2020): Another new Cyrtodactylus (Squamata: Gekkonidae) from Guwahati, Assam, India. Zootaxa 4732 (3): 375-392, DOI: https://doi.org/10.11646/zootaxa.4732.3.2
DOI: 10.18419/darus-513
title: INNWIND.EU scaled experiments of the OC4-DeepCwind semi-submersible

description: A floating wind test campaign was conducted within INNWIND.EU at LHEEA Nantes/France in 2014. The tested model is the OC4-DeepCwind semi-submersible in a scale of 1:45. The scaled 5MW rotor has re-designed blades with large chord to yield the Froude-scaled thrust force. In order to test also a 10MW system, wind/wave conditions of a scaling ratio of 1:60 were tested, with an adjusted rotor speed and blade pitch angle. The scaled model was modified in order to compensate the excess nacelle mass (due to actuators) by placing ballast underneath the original keel depth.
DOI: 10.5281/zenodo.3667475
title: Average genome coverage of the CAMI 2 Mouse Gut Toy data set

description: Genome coverage (short reads) averaged over the 64 samples of the CAMI 2 Mouse Gut Toy data set
DOI: 10.5281/zenodo.3667474
title: Average genome coverage of the CAMI 2 Mouse Gut Toy data set

description: Genome coverage (short reads) averaged over the 64 samples of the CAMI 2 Mouse Gut Toy data set
DOI: 10.5281/zenodo.3667476
title: MiRoR2 - P1 - Shortcomings in the evaluation of biomarkers in ovarian cancer: a systematic review

description: Data set for the study “Shortcomings in the evaluation of biomarkers in ovarian cancer: a systematic review”, including search strategy, extraction form, extracted data with summary of results, and protocol
DOI: 10.23729/40f64739-11d1-4e5f-8dc2-da931512c91c
title: SMEAR II Hyytiälä forest eddy covariance

description: This dataset contains time series of turbulent exchange of CO2, heat, momentum, O3 and particles measured at two heights at SMEAR II research station near Hyytiälä Forestry Field Station, Juupajoki, Finland, during years 1997–2018. The flux measurements were done with several measurement setups above the forest and at 3 m height below the canopy.
DOI: 10.5281/zenodo.3667494
title: A biomimetic approach to shielding from ionizing radiation: the case of melanized fungi

description: Experimental data and Jupyter notebooks supporting the article "A biomimetic approach to shielding from ionizing radiation: the case of melanized fungi". The repository folder: <strong>experiments</strong> contains the recordings from the shielding experiments. The directory name is the date the data was recorded. The files are ASCII text at the native output of WinSPEC for Inspectors format (see supplier website for more information). <strong>geant_apps</strong> contains the Geant4 applications and output files from the simulations. Any application can be compiled and installed using cmake, similar to the Geant4 examples. <strong>python</strong> contains the Jupyter notebooks to produce the figures and the tables on the aforementioned article. To compile the Geant4 applications, an installation of Geant4 is needed. The results in the repository were obtain using Geant4 10.5.