cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6871571.v1
title: Data on sea surface temperature, winds, and upwelling for the Atlantic coast of Nova Scotia, Canada

description: We provide data on sea surface temperature, winds, and upwelling for two locations (Duck Reef, 44.4913, -63.5270; Western Head, 43.9896, -64.6607) on the Atlantic coast of Nova Scotia, Canada in July 2014 and July 2015.<br>
DOI: 10.7910/dvn/1t8n3n/tdpuu2
title: 1V-52

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/m0pmrp
title: 1V-26

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/hz72uw
title: 1V-1

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/wtuf5y
title: 1V-24

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/hpt2ut
title: 1V-34

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/a8uww1
title: 1V-48

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/icifhf
title: 1V-31

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871421
title: Experiment and survey data from Drawing power of virtual crowds

description: Experiment and survey data csv file with headers
DOI: 10.7910/dvn/1t8n3n/a6ywiw
title: 1V-33

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/qjdxr0
title: 1V-25

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/kdklkc
title: 1V-59

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/wn9xut
title: 1V-38

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/q5uhpl
title: 1V-29

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/jmoaxb
title: 1V-47

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/uldjab
title: 1V-46

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/mwajic
title: 1V-30

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/myw1pk
title: 1V-45

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/3fuynz
title: 1V-57

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/p9mig7
title: 1V-8

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871298
title: Chemometrical analysis of proteomics data obtained from three cell types treated with multi-walled carbon nanotubes and TiO<sub>2</sub> nanobelts<sup>$</sup>

description: Applications of nanomaterials in biomedical, industrial, and consumer goods areas are expanding rapidly because of their unique physicochemical properties. Hazard assessment of nanosubstances is necessary for the protection of human and ecological health. We studied the proteomics patterns of three cell lines: co-culture of Caco-2 and HT29-MTX cells, primary small airway epithelial cells, and THP-1macrophage-like cells. The cells were exposed at 10 μg and 100 μg concentrations for 3 and 24 hours to multi-walled carbon nanotubes and TiO<sub>2</sub> nanobelts (TiO<sub>2</sub>-NB). The data were analysed with the hierarchical clustering method and principal components analysis. In all cases, time of exposure is the most important factor in separation and clustering of proteomics patterns. Furthermore, the sets of proteins, which are specific for long (24 hours) exposure, are identified.
DOI: 10.6084/m9.figshare.6871298.v1
title: Chemometrical analysis of proteomics data obtained from three cell types treated with multi-walled carbon nanotubes and TiO<sub>2</sub> nanobelts<sup>$</sup>

description: Applications of nanomaterials in biomedical, industrial, and consumer goods areas are expanding rapidly because of their unique physicochemical properties. Hazard assessment of nanosubstances is necessary for the protection of human and ecological health. We studied the proteomics patterns of three cell lines: co-culture of Caco-2 and HT29-MTX cells, primary small airway epithelial cells, and THP-1macrophage-like cells. The cells were exposed at 10 μg and 100 μg concentrations for 3 and 24 hours to multi-walled carbon nanotubes and TiO<sub>2</sub> nanobelts (TiO<sub>2</sub>-NB). The data were analysed with the hierarchical clustering method and principal components analysis. In all cases, time of exposure is the most important factor in separation and clustering of proteomics patterns. Furthermore, the sets of proteins, which are specific for long (24 hours) exposure, are identified.
DOI: 10.7910/dvn/1t8n3n/4t0cyq
title: 1V-5

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871277
title: Evolutionary and structure-function analysis elucidates diversification of prokaryotic and eukaryotic trehalases

description: Trehalase catalyses the breakdown of trehalose into two glucose moieties and is ubiquitous in all organisms. Here, we provide insights into the enigmatic origin and evolution of trehalase in major species. Study of taxonomic distribution, orthology, phylogeny and functional domains indicated that trehalase possibly originates from bacteria and was transmitted to other taxa through horizontal gene transfer. Domain analysis showed that glycosyl hydrolase family 37 is present in most of the sequences and represents dominant activity during evolution, and also, illustrating that cytosolic trehalase is primitive than its transmembrane form. Furthermore, it was observed that trehalase went through domain rearrangement to facilitate its activity in adverse environmental conditions like acidic pH. Gene context analysis depicts that trehalase neighbourhood consists of sugar transport and lipid metabolism genes. This highlights their relatedness in metabolic activity and similarity in gene regulation, respectively. Evolutionary and selection pressure analysis demonstrated that trehalase genes were duplicated and evolved under purifying selection, following horizontal gene transfer. Moreover, site-specific rate of evolution emphasized conservation of functionally important residues. In comparison with acid trehalase, neutral trehalase has an extra N-terminal extension. This study serves as an instigation to understand evolution and functionality of trehalase across diverse species. Communicated by Ramaswamy H. Sarma
DOI: 10.7910/dvn/1t8n3n/rxhhtj
title: 1V-18

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/wjzrls
title: 1V-32

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871277.v2
title: Evolutionary and structure-function analysis elucidates diversification of prokaryotic and eukaryotic trehalases

description: Trehalase catalyses the breakdown of trehalose into two glucose moieties and is ubiquitous in all organisms. Here, we provide insights into the enigmatic origin and evolution of trehalase in major species. Study of taxonomic distribution, orthology, phylogeny and functional domains indicated that trehalase possibly originates from bacteria and was transmitted to other taxa through horizontal gene transfer. Domain analysis showed that glycosyl hydrolase family 37 is present in most of the sequences and represents dominant activity during evolution, and also, illustrating that cytosolic trehalase is primitive than its transmembrane form. Furthermore, it was observed that trehalase went through domain rearrangement to facilitate its activity in adverse environmental conditions like acidic pH. Gene context analysis depicts that trehalase neighbourhood consists of sugar transport and lipid metabolism genes. This highlights their relatedness in metabolic activity and similarity in gene regulation, respectively. Evolutionary and selection pressure analysis demonstrated that trehalase genes were duplicated and evolved under purifying selection, following horizontal gene transfer. Moreover, site-specific rate of evolution emphasized conservation of functionally important residues. In comparison with acid trehalase, neutral trehalase has an extra N-terminal extension. This study serves as an instigation to understand evolution and functionality of trehalase across diverse species. Communicated by Ramaswamy H. Sarma
DOI: 10.7910/dvn/1t8n3n/puihlx
title: 1V-28

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/8iocjt
title: 1V-20

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/setpm7
title: 1V

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/wffydi
title: 1V-14

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/5rlelr
title: 1V-17

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871238
title: Forest LAI-age relation

description: This the regression between age and LAI<br>
DOI: 10.7910/dvn/1t8n3n/oayfbt
title: 1V-37

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871226
title: Forest management at Lysina

description: Forest age change due to logging<br>
DOI: 10.6084/m9.figshare.6871238.v1
title: Forest LAI-age relation

description: This the regression between age and LAI<br>
DOI: 10.6084/m9.figshare.6871160
title: PrzepioraT_rawdata

description: PrzepioraTomasz_rawdata <br>
DOI: 10.6084/m9.figshare.6871214
title: ADP

description: Four wetland types in Dongping Lake Basin were selected as research subjects and microbes in sampled sediments in summer and autumn were analysed by 16S rRNA amplicon sequencing.
DOI: 10.7910/dvn/1t8n3n/npctui
title: 1V-23

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871160.v1
title: PrzepioraT_rawdata

description: PrzepioraTomasz_rawdata <br>
DOI: 10.6084/m9.figshare.6871214.v1
title: ADP

description: Four wetland types in Dongping Lake Basin were selected as research subjects and microbes in sampled sediments in summer and autumn were analysed by 16S rRNA amplicon sequencing.
DOI: 10.7910/dvn/1t8n3n/hngf0d
title: 1V-42

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871136
title: Dataset for: Model discrimination for Ca<sup>2+</sup>-dependent regulation of myosin light chain kinase in smooth muscle contraction

description: Excitation-contraction coupling in smooth muscle is mediated by the Ca<sup>2+</sup>- and calmodulin-dependent regulation of myosin light chain kinase. The precise mechanism of this regulation remains controversial, and several mathematical models have been proposed for the interaction of the three species. These models have previously been analyzed at steady state primarily by numerical simulation of differential equations, for which parameter values must be estimated from data. Here, we use the linear framework for timescale separation to demonstrate that models of this general kind can be solved analytically for an equilibrium steady state, without having to determine parameter values. This analysis leads to parameter-independent methods for discriminating between the models, for which we propose experiments that could be performed with existing methods.
DOI: 10.6084/m9.figshare.6871136.v1
title: Dataset for: Model discrimination for Ca<sup>2+</sup>-dependent regulation of myosin light chain kinase in smooth muscle contraction

description: Excitation-contraction coupling in smooth muscle is mediated by the Ca<sup>2+</sup>- and calmodulin-dependent regulation of myosin light chain kinase. The precise mechanism of this regulation remains controversial, and several mathematical models have been proposed for the interaction of the three species. These models have previously been analyzed at steady state primarily by numerical simulation of differential equations, for which parameter values must be estimated from data. Here, we use the linear framework for timescale separation to demonstrate that models of this general kind can be solved analytically for an equilibrium steady state, without having to determine parameter values. This analysis leads to parameter-independent methods for discriminating between the models, for which we propose experiments that could be performed with existing methods.
DOI: 10.7910/dvn/1t8n3n/frmyaq
title: 1V-22

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/ppfiv7
title: 1V-7

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/62uqit
title: 1V-4

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871076
title: Effects of maternal nutrition on the expression of genomic imprinted genes in ovine fetuses

description: Genomic imprinting is an epigenetic phenomenon of differential allelic expression based on parental origin. To date, 263 imprinted genes have been identified among all investigated mammalian species. However, only 21 have been described in sheep, of which 11 are annotated in the current ovine genome. Here, we aim to i) use DNA/RNA high throughput sequencing to identify new monoallelically expressed and imprinted genes in day 135 ovine fetuses and ii) determine whether maternal diet (100%, 60%, or 140% of National Research Council Total Digestible Nutrients) influences expression of imprinted genes. We also reported strategies to solve technical challenges in the data analysis pipeline. We identified 80 monoallelically expressed, 13 new putative imprinted genes, and five known imprinted genes in sheep using the 263 genes stated above as a guide. Sanger sequencing confirmed allelic expression of seven genes, <i>CASD1, COPG2, DIRAS3, INPP5F, PLAGL1, PPP1R9A</i>, and <i>SLC22A18</i>. Among the 13 putative imprinted genes, five were localized in the known sheep imprinting domains of <i>MEST</i> on chromosome 4, <i>DLK1/GTL2</i> on chromosome 18 and <i>KCNQ1</i> on chromosome 21, and three were in a novel sheep imprinted cluster on chromosome 4, known in other species as <i>PEG10/SGCE</i>. The expression of <i>DIRAS3, IGF2, PHLDA2</i>, and <i>SLC22A18</i> was altered by maternal diet, albeit without allelic expression reversal. Together, our results expanded the list of sheep imprinted genes to 34 and demonstrated that while the expression levels of four imprinted genes were changed by maternal diet, the allelic expression patterns were un-changed for all imprinted genes studied.
DOI: 10.7910/dvn/1t8n3n/qii02t
title: 1V-10

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.7910/dvn/1t8n3n/lhxdfd
title: 1V-49

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871076.v1
title: Effects of Maternal Nutrition on the Expression of Genomic Imprinted Genes in Ovine Fetuses

description: Genomic imprinting is an epigenetic phenomenon of differential allelic expression based on parental origin. To date, 263 imprinted genes have been identified among all investigated mammalian species. However, only 21 have been described in sheep, of which 11 are annotated in the current ovine genome. Here, we aim to i) use DNA/RNA high throughput sequencing to identify new monoallelically expressed and imprinted genes in day 135 ovine fetuses, and ii) determine whether maternal diet (100%, 60%, or 140% of National Research Council Total Digestible Nutrients) influences expression of imprinted genes. We also reported strategies to solve technical challenges in the data analysis pipeline. We identified 80 monoallelically expressed, 13 new putative imprinted genes, and five known imprinted genes in sheep using the 263 genes stated above as a guide. Sanger sequencing confirmed allelic expression of seven genes, <i>CASD1, COPG2, DIRAS3, INPP5F, PLAGL1, PPP1R9A</i>, and <i>SLC22A18</i>. Among the 13 putative imprinted genes, five were localized in the known sheep imprinting domains of <i>MEST</i> on chromosome 4, <i>DLK1/GTL2</i> on chromosome 18 and <i>KCNQ1</i> on chromosome 21, and three were in a novel sheep imprinted cluster on chromosome 4, known in other species as <i>PEG10/SGCE</i>. The expression of <i>DIRAS3, IGF2, PHLDA2</i>, and <i>SLC22A18</i> was altered by maternal diet, albeit without allelic expression reversal. Together, our results expanded the list of sheep imprinted genes to 34 and demonstrated that while the expression levels of four imprinted genes were changed by maternal diet, the allelic expression patterns were un-changed for all imprinted genes studied.
DOI: 10.6084/m9.figshare.6871073
title: Dataset for: Structural and functional analyses of the cellulase transcription regulator CelR

description: CelR is a transcriptional regulator that controls the expression of cellulases catalyzing cellulose hydrolysis. However, the structural mechanism of its regulation has remained unclear. Here, we report the first structure of CelR, in this case with cellobiose bound. CelR consists of a DNA binding domain (DBD) and a regulatory domain (RD), and homodimerizes with each monomer bound to cellobiose. A hinge region (HR) in CelR connects the DBD with the RD, and Leu59 in the HR acts as a “leucine lever” that transduces a transcriptional-activation signal. Furthermore, an α4 helix mediates the ligand-binding signal for transcriptional activation. Tyr84 and Gln301 can potentially alter the ligand specificity of CelR. This study provides a pivotal step toward understanding transcription of the cellulases.
DOI: 10.6084/m9.figshare.6871076.v3
title: Effects of maternal nutrition on the expression of genomic imprinted genes in ovine fetuses

description: Genomic imprinting is an epigenetic phenomenon of differential allelic expression based on parental origin. To date, 263 imprinted genes have been identified among all investigated mammalian species. However, only 21 have been described in sheep, of which 11 are annotated in the current ovine genome. Here, we aim to i) use DNA/RNA high throughput sequencing to identify new monoallelically expressed and imprinted genes in day 135 ovine fetuses and ii) determine whether maternal diet (100%, 60%, or 140% of National Research Council Total Digestible Nutrients) influences expression of imprinted genes. We also reported strategies to solve technical challenges in the data analysis pipeline. We identified 80 monoallelically expressed, 13 new putative imprinted genes, and five known imprinted genes in sheep using the 263 genes stated above as a guide. Sanger sequencing confirmed allelic expression of seven genes, <i>CASD1, COPG2, DIRAS3, INPP5F, PLAGL1, PPP1R9A</i>, and <i>SLC22A18</i>. Among the 13 putative imprinted genes, five were localized in the known sheep imprinting domains of <i>MEST</i> on chromosome 4, <i>DLK1/GTL2</i> on chromosome 18 and <i>KCNQ1</i> on chromosome 21, and three were in a novel sheep imprinted cluster on chromosome 4, known in other species as <i>PEG10/SGCE</i>. The expression of <i>DIRAS3, IGF2, PHLDA2</i>, and <i>SLC22A18</i> was altered by maternal diet, albeit without allelic expression reversal. Together, our results expanded the list of sheep imprinted genes to 34 and demonstrated that while the expression levels of four imprinted genes were changed by maternal diet, the allelic expression patterns were un-changed for all imprinted genes studied.
DOI: 10.7910/dvn/1t8n3n/pmgjjs
title: 1V-39

description: sigma=1volts; This is a FITS file with 1 (primary) HDU. The following recognized metadata keys have been found in the FITS file: NAXIS2; NAXIS; NAXIS1; NAXIS0;
DOI: 10.6084/m9.figshare.6871073.v1
title: Dataset for: Structural and functional analyses of the cellulase transcription regulator CelR

description: CelR is a transcriptional regulator that controls the expression of cellulases catalyzing cellulose hydrolysis. However, the structural mechanism of its regulation has remained unclear. Here, we report the first structure of CelR, in this case with cellobiose bound. CelR consists of a DNA binding domain (DBD) and a regulatory domain (RD), and homodimerizes with each monomer bound to cellobiose. A hinge region (HR) in CelR connects the DBD with the RD, and Leu59 in the HR acts as a “leucine lever” that transduces a transcriptional-activation signal. Furthermore, an α4 helix mediates the ligand-binding signal for transcriptional activation. Tyr84 and Gln301 can potentially alter the ligand specificity of CelR. This study provides a pivotal step toward understanding transcription of the cellulases.