cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5002187.v3
title: among-population size differences in a geometrid moth

description: Differences in body size among European populations of <i>Ematurga atomaria.</i>
DOI: 10.6084/m9.figshare.5002187.v4
title: among-population size differences in a geometrid moth

description: Differences in body size among European populations of <i>Ematurga atomaria.</i>
DOI: 10.6084/m9.figshare.5002148
title: Sites for sea shore reconstruction.xlsx

description: Sites within two areas from east central Sweden that make up ground data for ancient sea shores. Each site has a position and an altitude and from analysis of lake sediments, or alternatively archaeological finds, 14C-datings are taken. Sites are closely connected to sea shore either by its type (archaeology) or by its diatom content showing the transition from fresh water to marine environment.
DOI: 10.6084/m9.figshare.5002187.v6
title: among-population size differences in a geometrid moth

description: Differences in body size among European populations of <i>Ematurga atomaria.</i>
DOI: 10.6084/m9.figshare.5002187.v5
title: among-population size differences in a geometrid moth

description: Differences in body size among European populations of <i>Ematurga atomaria.</i>
DOI: 10.6084/m9.figshare.5002082
title: Susceptibility to persuasion datafiles

description: The three SPSS encoded data files used in the PLoSONE article on Susceptibility to Persuasion.
DOI: 10.6084/m9.figshare.5002055
title: Pickled Yelp Data

description: pickled file of reviews from Yelp based on 'gym' search at county level; one file is the condensed version that does not include individual facilities within counties.
DOI: 10.6084/m9.figshare.5002055.v2
title: Pickled Yelp Data

description: pickled file of reviews from Yelp based on 'gym' search at county level; one file is the condensed version that does not include individual facilities within counties.
DOI: 10.6084/m9.figshare.5002055.v1
title: Pickled Yelp Data

description: pickled file of reviews from Yelp based on 'gym' search at county level; one file is the condensed version that does not include individual facilities within counties.
DOI: 10.6084/m9.figshare.5002022
title: Miscellaneous tables

description: Sequenced strain ID's and substrates, mapping of Kondrateva 2001 to JB IDs, and a summary of field microbiology studies that have identified fission yeasts.<br>
DOI: 10.6084/m9.figshare.5002022.v1
title: Miscellaneous tables

description: Sequenced strain ID's and substrates, mapping of Kondrateva 2001 to JB IDs, and a summary of field microbiology studies that have identified fission yeasts.<br>
DOI: 10.6084/m9.figshare.5002010
title: Spore viability and SNP genetic distances

description: Spore viability and SNP genetic distances.
DOI: 10.6084/m9.figshare.5002019.v1
title: Spore viability and segregant data from Kondrateva 2001

description: Spore viability and segregant data from Kondrateva 2001
DOI: 10.6084/m9.figshare.5002001
title: File S1 from Experimental priming of independent and interdependent activity does not affect culturally variable psychological processes

description: Data file for Experiment 1 in csv format
DOI: 10.6084/m9.figshare.5002019
title: Spore viability and segregant data from Kondrateva 2001 (and pdf of article).

description: Spore viability and segregant data from Kondrateva 2001
DOI: 10.6084/m9.figshare.5002001.v1
title: File S1 from Experimental priming of independent and interdependent activity does not affect culturally variable psychological processes

description: Data file for Experiment 1 in csv format
DOI: 10.6084/m9.figshare.5002010.v2
title: Spore viability and SNP genetic distances

description: Spore viability and SNP genetic distances.
DOI: 10.6084/m9.figshare.5001989
title: Locations and substrates of fission yeasts that have been sequenced.

description: Locations and substrates of fission yeasts that have been sequenced. Used for Figure 2 of Yeast budding topic 2017.
DOI: 10.6084/m9.figshare.5001992
title: File S2 from Experimental priming of independent and interdependent activity does not affect culturally variable psychological processes

description: Data file for Experiment 2 in csv format
DOI: 10.6084/m9.figshare.5002010.v1
title: Spore viability and SNP genetic distances

description: Spore viability and SNP genetic distances.
DOI: 10.6084/m9.figshare.5001992.v1
title: File S2 from Experimental priming of independent and interdependent activity does not affect culturally variable psychological processes

description: Data file for Experiment 2 in csv format
DOI: 10.6084/m9.figshare.5001986
title: File S3 from Experimental priming of independent and interdependent activity does not affect culturally variable psychological processes

description: R scripts to re-run the analyses presented in the paper, and additional analyses with additional predictors shown in Tables S1-S14.
DOI: 10.6084/m9.figshare.5001980
title: Summary data for field studies cited.

description: Data on location and substrates of field studies that have location fission yeasts, used for Figure 2.
DOI: 10.6084/m9.figshare.5001986.v1
title: File S3 from Experimental priming of independent and interdependent activity does not affect culturally variable psychological processes

description: R scripts to re-run the analyses presented in the paper, and additional analyses with additional predictors shown in Tables S1-S14.
DOI: 10.6084/m9.figshare.5001989.v1
title: Locations and substrates of fission yeasts that have been sequenced.

description: Locations and substrates of fission yeasts that have been sequenced. Used for Figure 2 of Yeast budding topic 2017.
DOI: 10.6084/m9.figshare.5001980.v1
title: Summary data for field studies cited.

description: Data on location and substrates of field studies that have location fission yeasts, used for Figure 2.
DOI: 10.6084/m9.figshare.5001965
title: Alkylated selenophene-based ladder-type monomers via a facile route for high performance thin-film transistor applications

description: We report the synthesis of two new selenophene containing ladder-type monomers, cyclopentadiselenophene and (CDS) and indacenodiselenophene (IDSe), via a facile route. Co-polymers with benzothiadiazole (BT) were prepared in high yield by Suzuki polymerization to afford co-polymers which exhibited excellent solubility in a range of non-chlorinated solvents.Thin-film transistors were fabricated using environmentally benign, non-chlorinated solvents with the CDS and IDSe co-polymers exhibiting hole mobility up to 0.15 and 6.4 cm<sup>2</sup>/Vs, respectively.
DOI: 10.6084/m9.figshare.5001956
title: Supplementary Material for: Is Regular Screening for Intracranial Aneurysm Necessary in Patients with Autosomal Dominant Polycystic Kidney Disease? A Systematic Review and Meta-analysis

description: <b><i>Background:</i></b> The prevalence of intracranial aneurysm in patients with autosomal dominant polycystic kidney disease (ADPKD) is higher than that among the general population. We performed a systematic review and meta-analysis on the prevalence and natural history of intracranial aneurysm among patients with ADPKD. <b><i>Methods:</i></b> Medline, Embase, Web of Science and Scopus, from inception to July 2016, were searched for studies reporting the occurrence of intracranial aneurysms among participants with ADPKD. Two authors independently assessed the eligibility of all retrieved studies and extracted data. Information on the prevalence of intracranial aneurysms and their natural history in participants with ADPKD was collected from all included studies. <b><i>Results:</i></b> Fifteen studies with 1,490 participants with ADPKD were pooled to study about the prevalence of intracranial aneurysm in participants with ADPKD, and the prevalence rate was found to be 10% (95% CI 7-13%). Studies from China, Japan and Europe (Germany, Poland) reported a higher prevalence of intracranial aneurysm. Having a family history of haemorrhagic stroke or intracranial aneurysm was a risk factor for aneurysm occurrence. Twenty-three percent (95% CI 15-31%) of the participants had multiple aneurysms. Most of the aneurysms were small (&lt;6 mm) and located in the anterior circulation. Five studies with 171 participants (83 with 106 aneurysms at baseline and 88 without) were analyzed to understand the natural history of aneurysms, with an incidence of aneurysm growth, new aneurysm and aneurysm rupture of 1.84% (followed up for 435 person-years), 0.57% (1,227 person-years) and 0.13% (792 person-years) respectively. <b><i>Conclusions:</i></b> Screening for intracranial aneurysm is recommended in patients with ADPKD when there is a family history of haemorrhagic stroke or intracranial aneurysm and when they are from China, Japan or Europe (Germany, Poland). Based on existing data, regular imaging follow-up is not supported. High-quality, prospective studies are needed in the future.
DOI: 10.6084/m9.figshare.5001965.v1
title: Alkylated selenophene-based ladder-type monomers via a facile route for high performance thin-film transistor applications

description: We report the synthesis of two new selenophene containing ladder-type monomers, cyclopentadiselenophene and (CDS) and indacenodiselenophene (IDSe), via a facile route. Co-polymers with benzothiadiazole (BT) were prepared in high yield by Suzuki polymerization to afford co-polymers which exhibited excellent solubility in a range of non-chlorinated solvents.Thin-film transistors were fabricated using environmentally benign, non-chlorinated solvents with the CDS and IDSe co-polymers exhibiting hole mobility up to 0.15 and 6.4 cm<sup>2</sup>/Vs, respectively.
DOI: 10.6084/m9.figshare.5001944
title: RESULTS_UPLOADED.xlsx

description: Study of robustness of co-occurrence and run-lenght matrices-based features in different image scenarios.
DOI: 10.6084/m9.figshare.5001938
title: Dataset for: Structure and inhibition of <i>N</i>-acetylneuraminate lyase from methicillin-resistant <i>Staphylococcus aureus</i>

description: <i>N</i>-Acetylneuraminate lyase is the first committed enzyme in the degradation of sialic acid by bacterial pathogens. The kinetic parameters of MRSA <i>N</i>-acetylneuraminate lyase are reported and given a <i>K</i><sub>M</sub> of 3.2 mM, flux through the catabolic pathway is likely to be controlled by this enzyme. Sialic acid alditol, a known inhibitor of <i>N</i>-acetylneuraminate lyase enzymes, is a stronger inhibitor for MRSA <i>N</i>-acetylneuraminate lyase than <i>Clostridium perfringens N</i>-acetylneuraminate lyase. The crystal structure of ligand free and inhibitor bound MRSA <i>N</i>-acetylneuraminate lyase is presented. Subtle dynamic differences in solution and/or altered binding interactions within the active site may account for species-specific inhibition.
DOI: 10.6084/m9.figshare.5001911
title: Dataset for: The epsilon motif of Hepatitis B virus RNA exhibits a potassium dependent ribonucleolytic activity

description: Fourteen different classes of ribozymes are known that catalyze a range of diverse chemical reactions. We report here a novel potassium-dependent nucleolytic activity present in Hepatitis B Virus (HBV) RNA. A short RNA region (53 nt) with enzymatic properties released itself from the viral sequence by cis cleavages and could subsequently act in trans. The released region encompassed the epsilon motif present in the HBV RNA. The 3’ end of the liberated fragment was within the non-canonical polyadenylation signal (UAUAAA) of the viral RNA while cleavages at about 53 nt upstream sites released the fragment. Mutations of the primary scissile sites or annealing these sites to the antisense oligodeoxyribonucleotides blocked the release of this short fragment and annulled subsequent trans cleavage activity. An exogenously synthesized short transcript of only this 53 nt, was active as a sequence independent trans-acting nuclease and cleaved after pyrimidines in viral or other substrate transcripts under physiological potassium ion concentrations. Formation of a G-quadruplex within this region was suggested by circular dichroism and nondenaturing polyacrylamide gel analyses. Our results reveal a unique natural example of a trans acting ribonuclease that cleaves at multiple sites in a sequence independent fashion. The presence of this novel activity implores a dynamic structural behaviour in the epsilon region and raises new questions about HBV gene regulation.
DOI: 10.6084/m9.figshare.5001914
title: Dataset for: Characterization of a Novel Signal Transducer Element Intrinsic to Class IIIa/b Adenylate Cyclases and Guanylate Cyclases

description: Adenylate cyclases (ACs) are signalling proteins that produce the second messenger cAMP. Class III ACs comprises four groups (class IIIa-d); of these, class IIIa and IIIb ACs have been identified in bacteria and eukaryotes. Many class IIIa ACs are anchored to membranes via hexahelical domains. In eukaryotic ACs, membrane anchors are well conserved, suggesting that this region possesses important functional characteristics that are as yet unknown. To address this question, we replaced the hexahelical membrane anchor of the mycobacterial AC Rv1625c by the hexahelical quorum-sensing receptor from Legionella, LqsS. Using this chimera, we identified a novel 19-amino-acid cyclase-transducer element located N-terminally to the catalytic domain that links receptor stimulation to effector activation. Coupling of the receptor to the AC was possible at several positions distal to the membrane exit resulting in stimulatory or inhibitory responses to the ligand Legionella AutoInducer-1 (LAI-1). In contrast, on the AC effector side functional coupling was only successful when starting with the cyclase-transducer element. Bioinformatics approaches established that distinct cyclase-transducer elements are universally present in class IIIa and IIIb ACs and in vertebrate guanylate cyclases. The data suggest that membrane-delimited receiver domains transduce regulatory signals to the downstream catalytic domains in an engineered AC model system. This may forecast a previously unknown mechanism for cellular cAMP regulation.
DOI: 10.6084/m9.figshare.5001938.v2
title: Dataset for: Structure and inhibition of <i>N</i>-acetylneuraminate lyase from methicillin-resistant <i>Staphylococcus aureus</i>

description: <i>N</i>-Acetylneuraminate lyase is the first committed enzyme in the degradation of sialic acid by bacterial pathogens. The kinetic parameters of MRSA <i>N</i>-acetylneuraminate lyase are reported and given a <i>K</i><sub>M</sub> of 3.2 mM, flux through the catabolic pathway is likely to be controlled by this enzyme. Sialic acid alditol, a known inhibitor of <i>N</i>-acetylneuraminate lyase enzymes, is a stronger inhibitor for MRSA <i>N</i>-acetylneuraminate lyase than <i>Clostridium perfringens N</i>-acetylneuraminate lyase. The crystal structure of ligand free and inhibitor bound MRSA <i>N</i>-acetylneuraminate lyase is presented. Subtle dynamic differences in solution and/or altered binding interactions within the active site may account for species-specific inhibition.
DOI: 10.6084/m9.figshare.5001905
title: Dataset for: The regulatory significance of tag recycling in the mycobacterial Pup-proteasome system

description: Pup, a ubiquitin analog, tags proteins for degradation by the bacterial proteasome. As an intracellular proteolytic system, the Pup-proteasome system (PPS) must be carefully regulated to prevent excessive protein degradation. Currently, those factors underlying PPS regulation remain poorly understood. Here, experimental analysis combined with theoretical modeling of in vivo protein pupylation revealed how the basic PPS design allows stable and controlled protein pupylation. Specifically, the recycling of Pup when targets are degraded allows the PPS to maintain steady state levels of protein pupylation and degradation at a rate limited by proteasome function, and at a pupylome level limited by Pup concentrations. This design allows the Pup-ligase, a highly promiscuous enzyme, to act in a controlled manner without causing damage, and the PPS to be effectively tuned to control protein degradation. This study thus provides understanding of how the inherent design of an intracellular proteolytic system serves crucial regulatory purposes.
DOI: 10.6084/m9.figshare.5001938.v1
title: Dataset for: Structure and inhibition of <i>N</i>-acetylneuraminate lyase from methicillin-resistant <i>Staphylococcus aureus</i>

description: <i>N</i>-Acetylneuraminate lyase is the first committed enzyme in the degradation of sialic acid by bacterial pathogens. The kinetic parameters of MRSA <i>N</i>-acetylneuraminate lyase are reported and given a <i>K</i><sub>M</sub> of 3.2 mM, flux through the catabolic pathway is likely to be controlled by this enzyme. Sialic acid alditol, a known inhibitor of <i>N</i>-acetylneuraminate lyase enzymes, is a stronger inhibitor for MRSA <i>N</i>-acetylneuraminate lyase than <i>Clostridium perfringens N</i>-acetylneuraminate lyase. The crystal structure of ligand free and inhibitor bound MRSA <i>N</i>-acetylneuraminate lyase is presented. Subtle dynamic differences in solution and/or altered binding interactions within the active site may account for species-specific inhibition.
DOI: 10.6084/m9.figshare.5001914.v1
title: Dataset for: Characterization of a Novel Signal Transducer Element Intrinsic to Class IIIa/b Adenylate Cyclases and Guanylate Cyclases

description: Adenylate cyclases (ACs) are signalling proteins that produce the second messenger cAMP. Class III ACs comprises four groups (class IIIa-d); of these, class IIIa and IIIb ACs have been identified in bacteria and eukaryotes. Many class IIIa ACs are anchored to membranes via hexahelical domains. In eukaryotic ACs, membrane anchors are well conserved, suggesting that this region possesses important functional characteristics that are as yet unknown. To address this question, we replaced the hexahelical membrane anchor of the mycobacterial AC Rv1625c by the hexahelical quorum-sensing receptor from Legionella, LqsS. Using this chimera, we identified a novel 19-amino-acid cyclase-transducer element located N-terminally to the catalytic domain that links receptor stimulation to effector activation. Coupling of the receptor to the AC was possible at several positions distal to the membrane exit resulting in stimulatory or inhibitory responses to the ligand Legionella AutoInducer-1 (LAI-1). In contrast, on the AC effector side functional coupling was only successful when starting with the cyclase-transducer element. Bioinformatics approaches established that distinct cyclase-transducer elements are universally present in class IIIa and IIIb ACs and in vertebrate guanylate cyclases. The data suggest that membrane-delimited receiver domains transduce regulatory signals to the downstream catalytic domains in an engineered AC model system. This may forecast a previously unknown mechanism for cellular cAMP regulation.
DOI: 10.6084/m9.figshare.5001920.v1
title: Dedicated Cardiac Rehabilitation Wearable Sensor and Its Clinical Potential

description: We introduce our developed wearable sensor for cardiac rehabilitation (CR) exercise. For an efficient guide for CR exercise, the dedicated CR wearable sensor (DCRW) automatically recommends the exercise intensity to a patient by comparing the real-time measured heart rate (HR) with a predefined target heart rate zone (THZ) during exercise.
DOI: 10.6084/m9.figshare.5001902
title: Dataset for: Quantum chemical modeling of the reaction path of chorismate mutase based on the experimental substrate/product complex

description: Chorismate mutase is a well-known model enzyme, catalyzing the Claisen rearrangement of chorismate to prephenate. Recent high-resolution crystal structures along the reaction coordinate of this enzyme enable computational analyses at unprecedented detail. Using quantum chemical simulations, we have investigated how the catalytic reaction mechanism is affected by electrostatic and hydrogen bond interactions. Our calculations showed that the transition state was mainly stabilized electrostatically, with Arg90 playing the leading role. The effect was augmented by selective hydrogen bond formation to the transition state in the wild-type enzyme, facilitated by a small-scale local induced fit. We further identified a previously underappreciated water molecule, which separates the negative charges during the reaction. The analysis includes the wild-type enzyme and a non-natural enzyme variant, where the catalytic arginine was replaced with an isosteric citrulline residue.
DOI: 10.6084/m9.figshare.5001905.v1
title: Dataset for: The regulatory significance of tag recycling in the mycobacterial Pup-proteasome system

description: Pup, a ubiquitin analog, tags proteins for degradation by the bacterial proteasome. As an intracellular proteolytic system, the Pup-proteasome system (PPS) must be carefully regulated to prevent excessive protein degradation. Currently, those factors underlying PPS regulation remain poorly understood. Here, experimental analysis combined with theoretical modeling of in vivo protein pupylation revealed how the basic PPS design allows stable and controlled protein pupylation. Specifically, the recycling of Pup when targets are degraded allows the PPS to maintain steady state levels of protein pupylation and degradation at a rate limited by proteasome function, and at a pupylome level limited by Pup concentrations. This design allows the Pup-ligase, a highly promiscuous enzyme, to act in a controlled manner without causing damage, and the PPS to be effectively tuned to control protein degradation. This study thus provides understanding of how the inherent design of an intracellular proteolytic system serves crucial regulatory purposes.
DOI: 10.6084/m9.figshare.5001911.v1
title: Dataset for: The epsilon motif of Hepatitis B virus RNA exhibits a potassium dependent ribonucleolytic activity

description: Fourteen different classes of ribozymes are known that catalyze a range of diverse chemical reactions. We report here a novel potassium-dependent nucleolytic activity present in Hepatitis B Virus (HBV) RNA. A short RNA region (53 nt) with enzymatic properties released itself from the viral sequence by cis cleavages and could subsequently act in trans. The released region encompassed the epsilon motif present in the HBV RNA. The 3’ end of the liberated fragment was within the non-canonical polyadenylation signal (UAUAAA) of the viral RNA while cleavages at about 53 nt upstream sites released the fragment. Mutations of the primary scissile sites or annealing these sites to the antisense oligodeoxyribonucleotides blocked the release of this short fragment and annulled subsequent trans cleavage activity. An exogenously synthesized short transcript of only this 53 nt, was active as a sequence independent trans-acting nuclease and cleaved after pyrimidines in viral or other substrate transcripts under physiological potassium ion concentrations. Formation of a G-quadruplex within this region was suggested by circular dichroism and nondenaturing polyacrylamide gel analyses. Our results reveal a unique natural example of a trans acting ribonuclease that cleaves at multiple sites in a sequence independent fashion. The presence of this novel activity implores a dynamic structural behaviour in the epsilon region and raises new questions about HBV gene regulation.