cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4116107
title: Virus+ Sequence Masked Human Reference Genome (hg19)

description: A version of the human genome (hg19) originally masked for ribosomal, plant, animal, fungal and low-entropy sequences by Brian Bushnell (Bushnell Masked Human Genome) additionally masked for all possible viral sequences. The following commands were used to generate the additional virus sequence masked reference database: <strong>1) Download all RefSeq and Neighbor nucleotide records:</strong> https://www.ncbi.nlm.nih.gov/nuccore/?term=Viruses[Organism]%20NOT%20cellular%20organisms[ORGN]%20NOT%20wgs[PROP]%20NOT%20gbdiv%20syn[prop]%20AND%20(srcdb_refseq[PROP]%20OR%20nuccore%20genome%20samespecies[Filter]) <strong>2) Shred the downloaded viral genomes using shred.sh from the bbtools package</strong> shred.sh in=refseq_virus_reformated.fasta out=virus_shred.fasta.gz length=85 minlength=75 overlap=30 <strong>3) Map shredded virus sequence to the hg19-masked human genome using bbmap.sh from the bbtools package</strong> bbmap.sh ref=hg19_main_mask_ribo_animal_allplant_allfungus.fa.gz in=virus_shred.fasta.gz outm=map_human_all_viruses.sam minid=0.90 <strong>4) Mask virus sequenced mapped regions from the hg19-masked human genome using bbmask.sh from the bbtools package</strong> bbmask.sh in=hg19_main_mask_ribo_animal_allplant_allfungus.fa.gz out=human_virus_masked.fasta.gz sam=map_human_all_viruses<br> .sam <strong>5) Remove all N's to further reduce file size using seqkit</strong><br> seqkit -is replace -p "n" -r "" human_virus_masked.fasta.gz &gt; human_virus_masked.fasta_Ns_removed.gz <strong>Additional References:</strong> http://seqanswers.com/forums/showthread.php?t=42552 for additional information on the original masking of hg19 bbtools seqkit NCBI Virus Genome RefSeq
DOI: 10.5281/zenodo.4116248
title: Virus+ Sequence Masked Mouse Reference Genome (GRCm38)

description: A version of the mouse genome (GRCm38) masked for all possible viral sequences. See Virus+ Masked Human Genome for a masked human reference database. The following commands were used to generate the additional virus sequence masked reference database: <strong>1) Download all RefSeq and Neighbor nucleotide records:</strong> https://www.ncbi.nlm.nih.gov/nuccore/?term=Viruses[Organism]%20NOT%20cellular%20organisms[ORGN]%20NOT%20wgs[PROP]%20NOT%20gbdiv%20syn[prop]%20AND%20(srcdb_refseq[PROP]%20OR%20nuccore%20genome%20samespecies[Filter]) <strong>2) Shred the downloaded viral genomes using shred.sh from the bbtools package</strong> shred.sh in=refseq_virus_reformated.fasta out=virus_shred.fasta.gz length=85 minlength=75 overlap=30 <strong>3) Map shredded virus sequence to the GRCm38</strong><strong> genome using bbmap.sh from the bbtools package</strong> bbmap.sh ref=GRCm38.fa.gz in=virus_shred.fasta.gz outm=map_mouse_all_viruses.sam minid=0.90 <strong>4) Mask virus sequenced mapped regions from the GRCm38 genome using bbmask.sh from the bbtools package</strong> bbmask.sh in=GRCm38.fa.gz out=GRCm38_virus_masked.fasta.gz sam=map_mouse_all_viruses.sam <strong>5) Remove all N's to further reduce file size using seqkit</strong><br> seqkit -is replace -p "n" -r "" GRCm38_virus_masked.fasta.gz &gt; mouse_virus_masked.fasta_Ns_removed.gz <strong>Additional References:</strong> bbtools seqkit NCBI Virus Genome RefSeq
DOI: 10.5281/zenodo.4116106
title: Virus+ Sequence Masked Human Reference Genome (hg19)

description: A version of the human genome (hg19) originally masked for ribosomal, plant, animal, fungal and low-entropy sequences by Brian Bushnell (Bushnell Masked Human Genome) additionally masked for all possible viral sequences. The following commands were used to generate the additional virus sequence masked reference database: <strong>1) Download all RefSeq and Neighbor nucleotide records:</strong> https://www.ncbi.nlm.nih.gov/nuccore/?term=Viruses[Organism]%20NOT%20cellular%20organisms[ORGN]%20NOT%20wgs[PROP]%20NOT%20gbdiv%20syn[prop]%20AND%20(srcdb_refseq[PROP]%20OR%20nuccore%20genome%20samespecies[Filter]) <strong>2) Shred the downloaded viral genomes using shred.sh from the bbtools package</strong> shred.sh in=refseq_virus_reformated.fasta out=virus_shred.fasta.gz length=85 minlength=75 overlap=30 <strong>3) Map shredded virus sequence to the hg19-masked human genome using bbmap.sh from the bbtools package</strong> bbmap.sh ref=hg19_main_mask_ribo_animal_allplant_allfungus.fa.gz in=virus_shred.fasta.gz outm=map_human_all_viruses.sam minid=0.90 <strong>4) Mask virus sequenced mapped regions from the hg19-masked human genome using bbmask.sh from the bbtools package</strong> bbmask.sh in=hg19_main_mask_ribo_animal_allplant_allfungus.fa.gz out=human_virus_masked.fasta.gz sam=map_human_all_viruses<br> .sam <strong>5) Remove all N's to further reduce file size using seqkit</strong><br> seqkit -is replace -p "n" -r "" human_virus_masked.fasta.gz &gt; human_virus_masked.fasta_Ns_removed.gz <strong>Additional References:</strong> http://seqanswers.com/forums/showthread.php?t=42552 for additional information on the original masking of hg19 bbtools seqkit NCBI Virus Genome RefSeq
DOI: 10.15468/rmgpcx
title: Two new species of feather mites of the subfamily Pterodectinae (Analgoidea: Proctophyllodidae) from Indonesia

description: This dataset contains the digitized treatments in Plazi based on the original journal article Constantinescu, Ioana Cristina, Chisamera, Gabriel Bogdan, Petrescu, Angela, Adam, Costica (2019): Two new species of feather mites of the subfamily Pterodectinae (Analgoidea: Proctophyllodidae) from Indonesia. Acarologia 59 (2): 196-210, DOI: 10.24349/acarologia/20194324, URL: http://dx.doi.org/10.24349/acarologia/20194324
DOI: 10.20351/29gd20170205
title: ABIDES-1 Cruise, RV García del Cid 

description: ABIDES-1 Cruise (29GD20170205) carried out on the Research Vessel García del Cid in 2017
DOI: 10.6084/m9.figshare.13268828.v1
title: Species Characteristics for 'Surface mines show little progress towards native species forest restoration following 35 years of passive management after initial reclamation'

description: This data set contains the taxa observed in the study along with factors: growth type, native status, and invasive status (defined in the Methods section of the manuscript). This spreadsheet was used alongside “Survey Matrix for Ruggles et al. 2020” to calculate the sum all categories for each aforementioned factors at each survey location. The result of this aggregation was the “Proportion Data for Ruggles et al. 2020” spreadsheet.
DOI: 10.6084/m9.figshare.13266995.v1
title: Survey Matrix for 'Surface mines show little progress towards native species forest restoration following 35 years of passive management after initial reclamation'

description: This spreadsheet contains the Site X Species matrix and the factor 'age' used to conduct statistical analyses for the project. Methodology pertaining to the collection of these data or statistical analyses conducted on them can be found in the manuscript.
DOI: 10.5281/zenodo.4399452
title: An All-sky 1 km Daily Surface Air Temperature Product over Mainland China

description: An all-sky daily mean surface air temperature (T<sub>a</sub>) product at 1 km spatial resolution over mainland China for 2003–2019 has been generated mainly from the Moderate Resolution Imaging Spectroradiometer (MODIS) products and the Global Land Data Assimilation System (GLDAS) dataset. Three T<sub>a</sub> estimation models based on random forest were trained using ground measurements from 2384 stations for three different clear-sky and cloudy-sky conditions. The validation results showed that R<sup>2</sup> and root mean square error (RMSE) values of the three models ranged from 0.984 to 0.986 and 1.342 K to 1.440 K, respectively, indicating that this high-resolution product has satisfactory accuracy. The format of the data is tif and a sample data is provided in example.zip. The dataset is stored by year, with 6 *.zip files per year. There is also an all-sky 0.01° daily surface air temperature product over Beijing for 2003–2019 (http://doi.org/10.5281/zenodo.4405123), which is a sub-dataset generated from this dataset for easy and convenient understanding of this dataset. And the sub-dataset has a data volume of only 264MB after compressed.
description: The dataset is also available at the University of Maryland (http://glass.umd.edu/Ta_China/). Due to the upload size restrictions, only the dataset for 2003–2008 is included on this site, and the complete dataset can be freely downloaded at http://glass.umd.edu/Ta_China/.
DOI: 10.15468/v5chyd
title: Revision of the genusPseudobryobia McGregor, 1950 (Acari, Tetranychidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Arabuli, Tea, Maric, Ivana, Auger, Philippe (2019): Revision of the genusPseudobryobia McGregor, 1950 (Acari, Tetranychidae). Acarologia 1950 (3): 291-300, DOI: 10.24349/acarologia/20194331, URL: http://dx.doi.org/10.24349/acarologia/20194331
DOI: 10.25403/upresearchdata.13283771
title: Understanding the value processes and barriers that ecological sustainable entrepreneurs face

description: Datasets for a research study on understanding value processes and barriers that ecological sustainable entrepreneurs face. The datasets consist of the following files: Audio recordings(mp3 & m4a) Signed informed consent, Clearance letter, Transcripts
DOI: 10.25403/upresearchdata.13283771.v1
title: Understanding the value processes and barriers that ecological sustainable entrepreneurs face

description: Datasets for a research study on understanding value processes and barriers that ecological sustainable entrepreneurs face. The datasets consist of the following files: Audio recordings(mp3 & m4a) Signed informed consent, Clearance letter, Transcripts
DOI: 10.5281/zenodo.4524718
title: lma and intf data

description: The LMA data is used to connect the radiation source, and the INTF data is used to verify the rationality of the connection.
DOI: 10.5281/zenodo.4524717
title: lma and intf data

description: The LMA data is used to connect the radiation source, and the INTF data is used to verify the rationality of the connection.
DOI: 10.25377/sussex.13664207
title: Research data for paper ‘Interneuronal mechanisms for learning-induced switch in a sensory response that anticipates changes in behavioural outcomes’.

description: <b>Behavioural and electrophysiological data used in the figures for paper published in Current Biology 10 February 2021.</b><br><b>Datasets:</b>Fig. 1. Behavioural data obtained by testing animals before and after aversive classical conditioning.Fig. 2D. Data obtained by electrophysiologically testing the sucrose response of the interneurone PlB in semi-intact preparations.Fig. 2E. Data obtained by measuring the baseline membrane potential and firing frequency of the interneurone PlB in semi-intact preparations.Fig. 3D. Data obtained by electrophysiologically testing the sucrose response of the feeding motoneuron B3 during the application of sucrose, before and after the photoinactivation of the interneurone PlB.Fig. 4C. Data obtained by electrophysiologically testing the response of the interneurone PlB to the electrical stimulation of the interneurone PeD12.Fig. S1. 1. Behavioural data obtained by testing animals before and after control protocols for aversive classical conditioning.<br><br><b>Abstract</b>Sensory cues in the natural environment predict reward or punishment, important for survival. For example, the ability to detect attractive tastes indicating palatable food is essential for foraging whilst the recognition of inedible substrates prevents harm. Whilst some of these sensory responses are innate, they can undergo fundamental changes due to prior experience associated with the stimulus. However, the mechanisms underlying such behavioural switching of an innate sensory response at the neuron and network levels require further investigation. We used the model learning system of <i>Lymnaea</i> <i>stagnalis</i> [1-3] to address the question of how an anticipated aversive outcome reverses the behavioural response to a previously effective feeding stimulus, sucrose. Key to the switching mechanism is an extrinsic inhibitory interneuron of the feeding network, PlB (pleural buccal [4, 5]), which is inhibited by sucrose to allow a feeding response. After multi-trial aversive associative conditioning, pairing sucrose with strong tactile stimuli to the head, PlB’s firing rate increases in response to sucrose application to the lips and the feeding response is suppressed; this learned response is reversed by the photoinactivation of a single PlB. A learning-induced persistent change in the cellular properties of PlB that results in an increase rather than a decrease in its firing rate in response to sucrose provides a neurophysiological mechanism for this behavioural switch. A key interneuron, PeD12 (Pedal-Dorsal 12), of the defensive withdrawal network [5, 6] does not mediate the conditioned suppression of feeding but its facilitated output contributes to the sensitization of the withdrawal response. <br><br><br>
DOI: 10.25377/sussex.13664207.v1
title: Research data for paper ‘Interneuronal mechanisms for learning-induced switch in a sensory response that anticipates changes in behavioural outcomes’.

description: <b>Behavioural and electrophysiological data used in the figures for paper published in Current Biology 10 February 2021.</b><br><b>Datasets:</b>Fig. 1. Behavioural data obtained by testing animals before and after aversive classical conditioning.Fig. 2D. Data obtained by electrophysiologically testing the sucrose response of the interneurone PlB in semi-intact preparations.Fig. 2E. Data obtained by measuring the baseline membrane potential and firing frequency of the interneurone PlB in semi-intact preparations.Fig. 3D. Data obtained by electrophysiologically testing the sucrose response of the feeding motoneuron B3 during the application of sucrose, before and after the photoinactivation of the interneurone PlB.Fig. 4C. Data obtained by electrophysiologically testing the response of the interneurone PlB to the electrical stimulation of the interneurone PeD12.Fig. S1. 1. Behavioural data obtained by testing animals before and after control protocols for aversive classical conditioning.<br><br><b>Abstract</b>Sensory cues in the natural environment predict reward or punishment, important for survival. For example, the ability to detect attractive tastes indicating palatable food is essential for foraging whilst the recognition of inedible substrates prevents harm. Whilst some of these sensory responses are innate, they can undergo fundamental changes due to prior experience associated with the stimulus. However, the mechanisms underlying such behavioural switching of an innate sensory response at the neuron and network levels require further investigation. We used the model learning system of <i>Lymnaea</i> <i>stagnalis</i> [1-3] to address the question of how an anticipated aversive outcome reverses the behavioural response to a previously effective feeding stimulus, sucrose. Key to the switching mechanism is an extrinsic inhibitory interneuron of the feeding network, PlB (pleural buccal [4, 5]), which is inhibited by sucrose to allow a feeding response. After multi-trial aversive associative conditioning, pairing sucrose with strong tactile stimuli to the head, PlB’s firing rate increases in response to sucrose application to the lips and the feeding response is suppressed; this learned response is reversed by the photoinactivation of a single PlB. A learning-induced persistent change in the cellular properties of PlB that results in an increase rather than a decrease in its firing rate in response to sucrose provides a neurophysiological mechanism for this behavioural switch. A key interneuron, PeD12 (Pedal-Dorsal 12), of the defensive withdrawal network [5, 6] does not mediate the conditioned suppression of feeding but its facilitated output contributes to the sensitization of the withdrawal response. <br><br><br>
DOI: 10.6084/m9.figshare.13794908
title: Nakatani and Muto_2021_JGR

description: Dataset used in Nakatani and Muto_2021_JGR
DOI: 10.6084/m9.figshare.13794908.v2
title: Nakatani and Muto_2021_JGR

description: Dataset used in Nakatani and Muto_2021_JGR
DOI: 10.6084/m9.figshare.13794908.v1
title: Nakatani and Muto_2021_JGR

description: Dataset used in Nakatani and Muto_2021_JGR
DOI: 10.5281/zenodo.4525017
title: Raw data for the paper "Direct evaluation of self-quenching behavior of fluorophores at high concentrations using an evanescent field"

description: Raw data for the Figure 2 of the paper in Excel file.
DOI: 10.5281/zenodo.4525016
title: Raw data for the paper "Direct evaluation of self-quenching behavior of fluorophores at high concentrations using an evanescent field"

description: Raw data for the Figure 2 of the paper in Excel file.
DOI: 10.6084/m9.figshare.13797674
title: Supplementary Material.docx

description: Reliability indices for evoked and voluntary torque and EMG variables of elbow flexors (pooled N = 29) and knee extensors (pooled N = 63).
DOI: 10.6084/m9.figshare.13797674.v1
title: Supplementary Material.docx

description: Reliability indices for evoked and voluntary torque and EMG variables of elbow flexors (pooled N = 29) and knee extensors (pooled N = 63).
DOI: 10.5281/zenodo.4523857
title: Dataset from "How does inattention affect written and spoken language processing?" Cohen et al., 2021, Cortex

description: Dataset from "How does inattention affect written and spoken language processing?" Cohen et al., 2021, Cortex The archive individual_data.zip contains, for each participant, 24 NIFTI images corresponding to the smoothed beta-maps of the 24 regressors from the 1st-level analysis, generated as described in the article. Those are the files that were entered in the second-level ANOVA. The files are named as follows:<br> scon_XX_YYYY.ni<br> XX: subject number<br> YYYY: regressor number Regressor numbers correspond to experimental conditions as follows: regressors [1:12]<br> % 1st half of stimuli<br> % {'VSA','VLA','VCA','ASA','ALA','ACA','VSnA','VLnA','VCnA','ASnA','ALnA','ACnA'},...% regressors [95:106]<br> % 2nd half of stimuli<br> % {'VSA','VLA','VCA','ASA','ALA','ACA','VSnA','VLnA','VCnA','ASnA','ALnA','ACnA'},...% 1st letter:<br> V = visual language <br> A = auditory language<br> 2nd letter:<br> S = sentences<br> L = lists<br> C = control<br> 3rd letter:<br> A = attended language<br> nA = unattended language <br>
DOI: 10.17632/jjfmp6nv4b.2
title: Comparing morphological and molecular estimates of species diversity in the freshwater genus Synura (Stramenopiles): a model for understanding diversity of eukaryotic microorganisms.

description: Multiple alignments of the nuclear ITS rDNA, SSU rDNA and LSU rDNA, plastid rbcL, psaA and LSU rDNA, and mitochondrial coxI loci sequences built either manually in MEGA6 or using MAFFT v6, applying the Q-INS-i strategy. In more variable loci alignments, those positions included in subsequent evolutionary analyses are indicated by mask.
DOI: 10.17632/95t3rzv6rs.1
title: Photobiont-mediated guilds in green algal lichens – an insight into the life of terrestrial symbiotic communities

description: Multiple alignment of the ITS rDNA locus sequences built using MAFFT v6, applying the Q-INS-i strategy, and improved by eliminating the ambiguously aligned regions using Gblocks v. 0.91b. Positions included in subsequent evolutionary analyses are indicated by mask.
DOI: 10.17632/dxgnd5rr7z.1
title: Processed Data from Effect of electrolyte and annealing temperature on anodic TiO2NTs films grown on Ticp and Ti6Al4V alloy substrates for biomedical applications

description: Analyzed data from study "Effect of electrolyte and annealing temperature on anodic TiO2NTs films grown on Ticp and Ti6Al4V alloy substrates for biomedical applications". Contains, contact angle data, surface energy calculations, morphological parameters of nanomateriais (nanotubes diameters and other), statistical analysis of all data.
DOI: 10.17632/w7m95wwrb5.2
title: Mujoco demonstrates for Imitation learning

description: This dataset can be used for studying imitation learning for robot control.
DOI: 10.17632/kry5pdc7sp.1
title: LINF_360054400

description: 60S ribosomal protein L18; Leishmania infantum
DOI: 10.17632/c7w3cgfzgt.1
title: Integration of LHCb workflows on the Santos Dumont supercomputer

description: To handle the growing amount of data coming from the LHC Run3 and then the High-Luminosity LHC phases, LHCb aims at integrating Monte-Carlo simulation workflows into supercomputers such as Santos Dumont, hosted in LNCC, in Brazil. Data focus on the use of Santos Dumont CPU resources for three months, in the context of LHCb. Data mainly include CSV files related to the CPU usage of the resources (CPU benchmark results, CPU seconds processed per second, statuses of the jobs, wallclock time allocated and used), as well as a Jupyter Notebook to present plots based on data. Data show that providing a more accurate CPU power value and leveraging multi-node allocations would ease the exploitation of a larger number of resources.
DOI: 10.17632/dvff2dp9tg.1
title: Suplementary data_Modified amino-dextrans as carriers of Gd-chelates for retrograde transport and visualization of peripheral nerves by magnetic resonance imaging (MRI)

description: FPLC spectra and SDS-PAGES of modified DTPA/DOTA amino-dextrans
DOI: 10.17632/96dz35gtrn.1
title: LINF_130010500

description: 60S ribosomal protein L18; Leishmania infantum
DOI: 10.17632/9c8xn7djp7.1
title: A review of electric bus vehicles research topics – A bibliometric analysis and trends

description: The transportation sector counts for a significant share of greenhouse gas emissions. Hence, the electrification of this sector can be a crucial contributor to the mitigation of global warming. Recent studies suggest that electric vehicles will be economically paired to internal combustion engine vehicles shortly. However, relying only on private vehicles decarbonization cannot deliver a comprehensive space efficiency solution in urban environments. Therefore, it is essential to invest in the technological development and deployment of electric buses for public transportation, directly enhancing the quality of life in large cities. From this perspective, this review examines a wide range of literature involving electric bus research using bibliometric methods and content analysis – 445 articles were analyzed, published from 2008 to 2020. The findings describe the research streams, trends, and most impacting articles. The analysis indicates that future research on electric buses will be mainly devoted to sustainability, energy management strategies, and fleet operation.