cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1439474.v1
title: Supplementary movies for : "Multiple scale model for cell migration in monolayers: Elastic mismatch between cells enhances motility"

description: Contains all movies mentioned in the main text. Here's a brief description of each movie file: SoftInNormal_Low_Density_AgingCompressed.mov Description : Aging, soft-in-normal, ρ = 0.85 SoftInNormal_High_Density_AgingCompressed.mov Description : Aging, soft-in-normal, ρ = 0.90 AllNormal_Low_Density_AgingCompressed.mov Description : Aging, all-normal, ρ = 0.85 AllNormal_High_Density_AgingCompressed.mov Description : Aging, all-normal, ρ = 0.90 SoftInNormal_Low_Density_ActiveCellsCompressed.mov Description : Motile cells, soft-in-normal, ρ = 0.85 SoftInNormal_High_Density_ActiveCellsCompressed.mov Description : Motile cells, soft-in-normal, ρ = 0.90 AllNormal_Low_Density_ActiveCellsCompressed.mov Description : Motile cells, all-normal, ρ = 0.85 AllNormal_High_Density_ActiveCellsCompressed.mov Description : Motile cells, all-normal, ρ = 0.90 SoftInNormal_High_Density_CoordinationCompressed.mov Description : Tagged soft cell and its neighbors, soft-in-normal, ρ = 0.90 2CellsHeadOnCollisionCompressed.mov Description : Determining friction with the substrate
DOI: 10.6084/m9.figshare.1439490.v3
title: Data for paper: Clark’s Nutcracker Breeding Season Space Use and Foraging Behavior

description: Data for paper: Clark’s Nutcracker Breeding Season Space Use and Foraging Behavior
DOI: 10.6084/m9.figshare.1439441
title: Mutual Redundancies and Triple Contingencies among Perspectives on Horizons of Meaning

description: PowerPoint Presentation at the conference of International Society for Information Studies, Vienna, 3-7 June 2014; Session: Integration of the Philosophy of Information and Information Science
DOI: 10.6084/m9.figshare.1439440
title: Specialized cortex glial cells accumulate lipid droplets in Drosophila melanogaster

description: Figures related to the article "Specialized cortex glial cells accumulate lipid droplets in Drosophila melanogaster" in PLOS ONE
DOI: 10.6084/m9.figshare.1439490.v4
title: Data for paper: Clark’s Nutcracker Breeding Season Space Use and Foraging Behavior

description: Data for paper: Clark’s Nutcracker Breeding Season Space Use and Foraging Behavior
DOI: 10.6084/m9.figshare.1439432
title: Faces extracted from Trove newspaper photographs

description: This is a collection of faces extracted from digitised newspapers available through http://trove.nla.gov.au. Photographs were harvested from the newspapers using the Trove API. OpenCV2 was used to extract faces from the photographs. The filenames of the faces include important contextual information. for example: 18950209-460-139706071-1.jpg This filename contains four fields separated by hyphens. <strong>18950209</strong> – date the original newspaper article was published. In this case 1895–02–09 in ISO format, or 9 February 1895. <strong>460</strong> – the Trove identifier for the newspaper in which the article was published. By appending this to a Trove url you can retrieve more information via the web interface or API: web – http://nla.gov.au/nla.news-title460 API – http://api.trove.nla.gov.au/newspaper/title/460?key=[your API key] <strong>139706071</strong> – the Trove identifier for the article. By appending this to a Trove url you can retrieve more information via the web interface or API: web – http://nla.gov.au/nla.news-article139706071 API – http://api.trove.nla.gov.au/newspaper/139706071?key=[your API key] <strong>1</strong> – the index of the face extracted from the article. You can also explore the same dataset using my Face API. Tim Sherratt (@wragge) tim@discontents.com.au 7 June 2015
DOI: 10.6084/m9.figshare.1439440.v1
title: Specialized cortex glial cells accumulate lipid droplets in Drosophila melanogaster

description: Figures related to the article "Specialized cortex glial cells accumulate lipid droplets in Drosophila melanogaster" in PLOS ONE
DOI: 10.6084/m9.figshare.1439490.v5
title: Data for paper: Clark’s Nutcracker Breeding Season Space Use and Foraging Behavior

description: Data for paper: Clark’s Nutcracker Breeding Season Space Use and Foraging Behavior
DOI: 10.6084/m9.figshare.1439334
title: Resolving NIH small-molecule probe codes

description: ML probe numbers to CID mappings from the Cell review "Advancing Biological Understanding and Therapeutics Discovery with Small-Molecule Probes" (PMID 26046436). This includes supplementary tables displaying 88 structures, most of which are mapped in this data sheet
DOI: 10.6084/m9.figshare.1439337
title: Mothership : (M)otherness and authorship in Tainted Love by Stewart Home

description: The paper based on the dissertation chapter presented at the conference Motherhood and creative practice: Maternal structures in creative work held on 1-2 June 2015 at London South Bank University
DOI: 10.6084/m9.figshare.1439627.v7
title: error

description: error
DOI: 10.6084/m9.figshare.1439334.v1
title: Resolving NIH small-molecule probe codes

description: ML probe numbers to CID mappings from the Cell review "Advancing Biological Understanding and Therapeutics Discovery with Small-Molecule Probes" (PMID 26046436). This includes supplementary tables displaying 88 structures, most of which are mapped in this data sheet
DOI: 10.6084/m9.figshare.1439627.v9
title: The proving freedom principle of trading with comparative study in France trading law and its critic

description: Abstract:<br>More attention to the social justice and uncover the truth, influenced on the rules of evidence and has created the principle of the persuasion of proof as well as the social order and the importance of reasonable dispute settlement have created the principle of legality of evidence in the common law; but in the commercial law of France, the necessity of speed and reliability in business affairs, has provided the principle of freedom of proof as the minimum effect (the removal of the restrictions of evidence by the court) and the maximum effect (equivalent to the principle of the persuasion of proof ); the application of this principle has the two main requirements: 1) the disputes will be business affairs, 2) 2-the reason for proving will be used against the merchant; This principle has as well as the exceptions that the French legal thought will be criticized in the expression of exceptions. This principle has some effects that the main effect is the removal of restrictions on admission of evidence in the field of the commercial law; the status of this principle in the Iranian law has been some ambiguity in order to the historically and require to the historical survey as well as the is seemly the despite the principle will be considered in the new draft Law of trade of Iran and the draft of commercial of criminal procedure Act of Iran.<br>Keywords: evidence, proof system, Freedom of proof, Iranian trade Law, Iranian business law, French business law
DOI: 10.6084/m9.figshare.1439337.v1
title: Mothership : (M)otherness and authorship in Tainted Love by Stewart Home

description: The paper based on the dissertation chapter presented at the conference Motherhood and creative practice: Maternal structures in creative work held on 1-2 June 2015 at London South Bank University
DOI: 10.6084/m9.figshare.1439627.v8
title: The proving freedom principle of trading with comparative study in France trading law and its critic

description: Abstract:<br>More attention to the social justice and uncover the truth, influenced on the rules of evidence and has created the<br>principle of the persuasion of proof as well as the social order and the importance of reasonable dispute settlement<br>have created the principle of legality of evidence in the common law; but in the commercial law of France, the<br>necessity of speed and reliability in business affairs, has provided the principle of freedom of proof as the minimum<br>effect (the removal of the restrictions of evidence by the court) and the maximum effect (equivalent to the principle<br>of the persuasion of proof ); the application of this principle has the two main requirements: 1) the disputes will be<br>business affairs, 2) 2-the reason for proving will be used against the merchant; This principle has as well as the<br>exceptions that the French legal thought will be criticized in the expression of exceptions. This principle has some<br>effects that the main effect is the removal of restrictions on admission of evidence in the field of the commercial<br>law; the status of this principle in the Iranian law has been some ambiguity in order to the historically and require to<br>the historical survey as well as the is seemly the despite the principle will be considered in the new draft Law of<br>trade of Iran and the draft of commercial of criminal procedure Act of Iran.<br>Keywords: evidence, proof system, Freedom of proof, Iranian trade Law, Iranian business law, French business law
DOI: 10.6084/m9.figshare.1439313
title: Figure06

description: Stem contact area
DOI: 10.6084/m9.figshare.1439314
title: Figure09

description: Mean ridge deformation
DOI: 10.6084/m9.figshare.1439312
title: Figure05

description: Stem taper ridges in contact
DOI: 10.6084/m9.figshare.1439313.v1
title: Figure06

description: Stem contact area
DOI: 10.6084/m9.figshare.1437804
title: Poster: calculating mutual information for spike trains and other data with distances but no coordinates

description: Poster for ICMNS2015 based on the paper R. Soc. open sci. 2015 2 140391; DOI: 10.1098/rsos.140391. This paper gives a simple formula for estimating mutual information between random variables on metric spaces. The poster format was inspired by http://blog.felixbreuer.net/2010/10/24/poster.html
DOI: 10.6084/m9.figshare.1439301
title: MS in COPD

description: Database for published study. Contact for more info or how to interpret it.
DOI: 10.6084/m9.figshare.1439312.v1
title: Figure05

description: Stem taper ridges in contact
DOI: 10.6084/m9.figshare.1439314.v1
title: Figure09

description: Mean ridge deformation
DOI: 10.6084/m9.figshare.1437804.v1
title: Calculating mutual information for spike trains and other data with distances but no coordinates

description: Poster for ICMNS2015 based on the paper R. Soc. open sci. 2015 2 140391; DOI: 10.1098/rsos.140391. This paper gives a simple formula for estimating mutual information between random variables on metric spaces. The poster format was inspired by http://blog.felixbreuer.net/2010/10/24/poster.html
DOI: 10.6084/m9.figshare.1437790.v1
title: The transcription factor Swi4 is target for PKA regulation of cell size at the G1 to S transition in <i>Saccharomyces cerevisiae</i>.

description: To investigate the specific target of PKA in the regulation of cell cycle progression and cell size we developed a new approach using the yeast strain GG104 bearing a deletion in adenylate cyclase gene and permeable to cAMP ( <i>cyr1</i>Δ, <i>pde2</i>Δ, <i>msn2</i>Δ, <i>msn4</i>Δ). In this strain the PKA activity is absent and can be activated by addition of cAMP in the medium, without any other change of the growth conditions. In the present work we show that the activation of PKA by exogenous cAMP in the GG104 strain exponentially growing in glucose medium caused a marked increase of cell size and perturbation of cell cycle with a transient arrest of cells in G<sub>1</sub>, followed by an accumulation of cells in G<sub>2</sub>/M phase with a minimal change in the growth rate. Deletion of <i>CLN1</i> gene, but not of <i>CLN2</i>, abolished the transient G<sub>1</sub> phase arrest. Consistently we found that PKA activation caused a transcriptional repression of <i>CLN1</i> gene. Transcription of <i>CLN1</i> is controlled by SBF anf MBF dual-regulated promoter. We found that also the deletion of <i>SWI4</i> gene abolished the transient G<sub>1</sub> arrest suggesting that Swi4 is a target responsible for PKA modulation of G<sub>1</sub>/S phase transition. We generated a <i>SWI4</i> allele mutated in the consensus site for PKA (Swi4<sup>S159A</sup>) and we found that expression of Swi4<sup>S159A</sup> protein in the GG104-<i>Swi4</i>Δ strain did not restore the transient G<sub>1</sub> arrest induced by PKA activation, suggesting that Swi4 phosphorylation by PKA regulates <i>CLN1</i> gene expression and G<sub>1</sub>/S phase transition.
DOI: 10.6084/m9.figshare.1437785
title: Report on the Eighth US–Japan Joint Seminar on Nanoscale Transport Phenomena—Science and Engineering

description: Report on the Eighth US–Japan Joint Seminar on Nanoscale Transport Phenomena—Science and Engineering
DOI: 10.6084/m9.figshare.1437790.v2
title: The transcription factor Swi4 is target for PKA regulation of cell size at the G<sup>1</sup> to S transition in <i>Saccharomyces cerevisiae</i>

description: To investigate the specific target of PKA in the regulation of cell cycle progression and cell size we developed a new approach using the yeast strain GG104 bearing a deletion in adenylate cyclase gene and permeable to cAMP ( <i>cyr1</i>Δ, <i>pde2</i>Δ, <i>msn2</i>Δ, <i>msn4</i>Δ). In this strain the PKA activity is absent and can be activated by addition of cAMP in the medium, without any other change of the growth conditions. In the present work we show that the activation of PKA by exogenous cAMP in the GG104 strain exponentially growing in glucose medium caused a marked increase of cell size and perturbation of cell cycle with a transient arrest of cells in G<sub>1</sub>, followed by an accumulation of cells in G<sub>2</sub>/M phase with a minimal change in the growth rate. Deletion of <i>CLN1</i> gene, but not of <i>CLN2</i>, abolished the transient G<sub>1</sub> phase arrest. Consistently we found that PKA activation caused a transcriptional repression of <i>CLN1</i> gene. Transcription of <i>CLN1</i> is controlled by SBF and MBF dual-regulated promoter. We found that also the deletion of <i>SWI4</i> gene abolished the transient G<sub>1</sub> arrest suggesting that Swi4 is a target responsible for PKA modulation of G<sub>1</sub>/S phase transition. We generated a <i>SWI4</i> allele mutated in the consensus site for PKA (Swi4<sup>S159A</sup>) and we found that expression of Swi4<sup>S159A</sup> protein in the GG104-<i>Swi4</i>Δ strain did not restore the transient G<sub>1</sub> arrest induced by PKA activation, suggesting that Swi4 phosphorylation by PKA regulates <i>CLN1</i> gene expression and G<sub>1</sub>/S phase transition.
DOI: 10.6084/m9.figshare.1437785.v1
title: Report on the Eighth US–Japan Joint Seminar on Nanoscale Transport Phenomena—Science and Engineering

description: Report on the Eighth US–Japan Joint Seminar on Nanoscale Transport Phenomena—Science and Engineering
DOI: 10.6084/m9.figshare.1437790.v3
title: The transcription factor Swi4 is target for PKA regulation of cell size at the G<sub>1</sub> to S transition in <i>Saccharomyces cerevisiae</i>

description: To investigate the specific target of PKA in the regulation of cell cycle progression and cell size we developed a new approach using the yeast strain GG104 bearing a deletion in adenylate cyclase gene and permeable to cAMP ( <i>cyr1</i>Δ, <i>pde2</i>Δ, <i>msn2</i>Δ, <i>msn4</i>Δ). In this strain the PKA activity is absent and can be activated by addition of cAMP in the medium, without any other change of the growth conditions. In the present work we show that the activation of PKA by exogenous cAMP in the GG104 strain exponentially growing in glucose medium caused a marked increase of cell size and perturbation of cell cycle with a transient arrest of cells in G<sub>1</sub>, followed by an accumulation of cells in G<sub>2</sub>/M phase with a minimal change in the growth rate. Deletion of <i>CLN1</i> gene, but not of <i>CLN2</i>, abolished the transient G<sub>1</sub> phase arrest. Consistently we found that PKA activation caused a transcriptional repression of <i>CLN1</i> gene. Transcription of <i>CLN1</i> is controlled by SBF and MBF dual-regulated promoter. We found that also the deletion of <i>SWI4</i> gene abolished the transient G<sub>1</sub> arrest suggesting that Swi4 is a target responsible for PKA modulation of G<sub>1</sub>/S phase transition. We generated a <i>SWI4</i> allele mutated in the consensus site for PKA (Swi4<sup>S159A</sup>) and we found that expression of Swi4<sup>S159A</sup> protein in the GG104-<i>Swi4</i>Δ strain did not restore the transient G<sub>1</sub> arrest induced by PKA activation, suggesting that Swi4 phosphorylation by PKA regulates <i>CLN1</i> gene expression and G<sub>1</sub>/S phase transition.
DOI: 10.6084/m9.figshare.1437790.v4
title: The transcription factor Swi4 is target for PKA regulation of cell size at the G<sub>1</sub> to S transition in <i>Saccharomyces cerevisiae</i>

description: To investigate the specific target of PKA in the regulation of cell cycle progression and cell size we developed a new approach using the yeast strain GG104 bearing a deletion in adenylate cyclase gene and permeable to cAMP ( <i>cyr1</i>Δ, <i>pde2</i>Δ, <i>msn2</i>Δ, <i>msn4</i>Δ). In this strain the PKA activity is absent and can be activated by addition of cAMP in the medium, without any other change of the growth conditions. In the present work we show that the activation of PKA by exogenous cAMP in the GG104 strain exponentially growing in glucose medium caused a marked increase of cell size and perturbation of cell cycle with a transient arrest of cells in G<sub>1</sub>, followed by an accumulation of cells in G<sub>2</sub>/M phase with a minimal change in the growth rate. Deletion of <i>CLN1</i> gene, but not of <i>CLN2</i>, abolished the transient G<sub>1</sub> phase arrest. Consistently we found that PKA activation caused a transcriptional repression of <i>CLN1</i> gene. Transcription of <i>CLN1</i> is controlled by SBF and MBF dual-regulated promoter. We found that also the deletion of <i>SWI4</i> gene abolished the transient G<sub>1</sub> arrest suggesting that Swi4 is a target responsible for PKA modulation of G<sub>1</sub>/S phase transition. We generated a <i>SWI4</i> allele mutated in the consensus site for PKA (Swi4<sup>S159A</sup>) and we found that expression of Swi4<sup>S159A</sup> protein in the GG104-<i>Swi4</i>Δ strain did not restore the transient G<sub>1</sub> arrest induced by PKA activation, suggesting that Swi4 phosphorylation by PKA regulates <i>CLN1</i> gene expression and G<sub>1</sub>/S phase transition.
DOI: 10.6084/m9.figshare.1437782
title: Polycomb repressive complex 2 epigenomic signature defines age-associated hypermethylation and gene expression changes

description: Although age-associated gene expression and methylation changes have been reported throughout the literature, the unifying epigenomic principles of aging remain poorly understood. Recent explosion in availability and resolution of functional/regulatory genome annotation data (epigenomic data), such as that provided by the ENCODE and Roadmap Epigenomics projects, provides an opportunity for the identification of epigenomic mechanisms potentially altered by age-associated differentially methylated regions (aDMRs) and regulatory signatures in the promoters of age-associated genes (aGENs). In this study we found that aDMRs and aGENs identified in multiple independent studies share a common Polycomb Repressive Complex 2 signature marked by EZH2, SUZ12, CTCF binding sites, repressive H3K27me3, and activating H3K4me1 histone modification marks, and a “poised promoter” chromatin state. This signature is depleted in RNA Polymerase II-associated transcription factor binding sites, activating H3K79me2, H3K36me3, H3K27ac marks, and an “active promoter” chromatin state. The PRC2 signature was shown to be generally stable across cell types. When considering the directionality of methylation changes, we found the PRC2 signature to be associated with aDMRs hypermethylated with age, while hypomethylated aDMRs were associated with enhancers. In contrast, aGENs were associated with the PRC2 signature independently of the directionality of gene expression changes. In this study we demonstrate that the PRC2 signature is the common epigenomic context of genomic regions associated with hypermethylation and gene expression changes in aging.
DOI: 10.6084/m9.figshare.1437790
title: The transcription factor Swi4 is target for PKA regulation of cell size at the G<sub>1</sub> to S transition in <i>Saccharomyces cerevisiae</i>

description: To investigate the specific target of PKA in the regulation of cell cycle progression and cell size we developed a new approach using the yeast strain GG104 bearing a deletion in adenylate cyclase gene and permeable to cAMP ( <i>cyr1</i>Δ, <i>pde2</i>Δ, <i>msn2</i>Δ, <i>msn4</i>Δ). In this strain the PKA activity is absent and can be activated by addition of cAMP in the medium, without any other change of the growth conditions. In the present work we show that the activation of PKA by exogenous cAMP in the GG104 strain exponentially growing in glucose medium caused a marked increase of cell size and perturbation of cell cycle with a transient arrest of cells in G<sub>1</sub>, followed by an accumulation of cells in G<sub>2</sub>/M phase with a minimal change in the growth rate. Deletion of <i>CLN1</i> gene, but not of <i>CLN2</i>, abolished the transient G<sub>1</sub> phase arrest. Consistently we found that PKA activation caused a transcriptional repression of <i>CLN1</i> gene. Transcription of <i>CLN1</i> is controlled by SBF and MBF dual-regulated promoter. We found that also the deletion of <i>SWI4</i> gene abolished the transient G<sub>1</sub> arrest suggesting that Swi4 is a target responsible for PKA modulation of G<sub>1</sub>/S phase transition. We generated a <i>SWI4</i> allele mutated in the consensus site for PKA (Swi4<sup>S159A</sup>) and we found that expression of Swi4<sup>S159A</sup> protein in the GG104-<i>Swi4</i>Δ strain did not restore the transient G<sub>1</sub> arrest induced by PKA activation, suggesting that Swi4 phosphorylation by PKA regulates <i>CLN1</i> gene expression and G<sub>1</sub>/S phase transition.
DOI: 10.6084/m9.figshare.1437790.v5
title: The transcription factor Swi4 is target for PKA regulation of cell size at the G<sub>1</sub> to S transition in <i>Saccharomyces cerevisiae</i>

description: To investigate the specific target of PKA in the regulation of cell cycle progression and cell size we developed a new approach using the yeast strain GG104 bearing a deletion in adenylate cyclase gene and permeable to cAMP ( <i>cyr1</i>Δ, <i>pde2</i>Δ, <i>msn2</i>Δ, <i>msn4</i>Δ). In this strain the PKA activity is absent and can be activated by addition of cAMP in the medium, without any other change of the growth conditions. In the present work we show that the activation of PKA by exogenous cAMP in the GG104 strain exponentially growing in glucose medium caused a marked increase of cell size and perturbation of cell cycle with a transient arrest of cells in G<sub>1</sub>, followed by an accumulation of cells in G<sub>2</sub>/M phase with a minimal change in the growth rate. Deletion of <i>CLN1</i> gene, but not of <i>CLN2</i>, abolished the transient G<sub>1</sub> phase arrest. Consistently we found that PKA activation caused a transcriptional repression of <i>CLN1</i> gene. Transcription of <i>CLN1</i> is controlled by SBF and MBF dual-regulated promoter. We found that also the deletion of <i>SWI4</i> gene abolished the transient G<sub>1</sub> arrest suggesting that Swi4 is a target responsible for PKA modulation of G<sub>1</sub>/S phase transition. We generated a <i>SWI4</i> allele mutated in the consensus site for PKA (Swi4<sup>S159A</sup>) and we found that expression of Swi4<sup>S159A</sup> protein in the GG104-<i>Swi4</i>Δ strain did not restore the transient G<sub>1</sub> arrest induced by PKA activation, suggesting that Swi4 phosphorylation by PKA regulates <i>CLN1</i> gene expression and G<sub>1</sub>/S phase transition.