cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1301975.v3
title: FANCD2, FANCJ and BRCA2 cooperate to promote replication fork recovery independently of the Fanconi Anemia core complex

description: Fanconi Anemia (FA) is an inherited multi-gene cancer predisposition syndrome that is characterized on the cellular level by a hypersensitivity to DNA interstrand crosslinks (ICLs). To repair these lesions, the FA pathway proteins are thought to act in a linear hierarchy: Following ICL detection, an upstream FA core complex monoubiquitinates the central FA pathway members FANCD2 and FANCI, followed by their recruitment to chromatin. Chromatin-bound monoubiquitinated FANCD2 and FANCI subsequently coordinate DNA repair factors including the downstream FA pathway members FANCJ and FANCD1/BRCA2 to repair the DNA ICL. Importantly, we recently showed that FANCD2 has additional independent roles: it binds chromatin and acts in concert with the BLM helicase complex to promote the restart of aphidicolin (APH)-stalled replication forks, while suppressing the firing of new replication origins. Here, we show that FANCD2 fulfills these roles independently of the FA core complex-mediated monoubiquitination step. Following APH treatment, nonubiquitinated FANCD2 accumulates on chromatin, recruits the BLM complex, and promotes robust replication fork recovery regardless of the absence or presence of a functional FA core complex. In contrast, the downstream FA pathway members FANCJ and BRCA2 share FANCD2's role in replication fork restart and the suppression of new origin firing. Our results support a non-linear FA pathway model at stalled replication forks, where the nonubiquitinated FANCD2 isoform – in concert with FANCJ and BRCA2 – fulfills a specific function in promoting efficient replication fork recovery independently of the FA core complex.
DOI: 10.6084/m9.figshare.1301967
title: Study2SeeingRedData

description: Data for PLOSONE Manuscript "Seeing Red: Anger Increases How Much Republican Identification Predicts Partisan Attitudes and Perceived Polarization"
DOI: 10.6084/m9.figshare.1301971.v1
title: Damage-induced BRCA1 phosphorylation by Chk2 contributes to the timing of end resection

description: The BRCA1 tumor suppressor plays an important role in homologous recombination (HR)-mediated DNA double-strand-break (DSB) repair. BRCA1 is phosphorylated by Chk2 kinase upon γ-irradiation, but the role of Chk2 phosphorylation is not understood. Here, we report that abrogation of Chk2 phosphorylation on BRCA1 delays end resection and the dispersion of BRCA1 from DSBs but does not affect the assembly of Mre11/Rad50/NBS1 (MRN) and CtIP at DSBs. Moreover, we show that BRCA1 is ubiquitinated by SCF<sup>Skp2</sup> and that abrogation of Chk2 phosphorylation impairs its ubiquitination. Our study suggests that BRCA1 is more than a scaffold protein to assemble HR repair proteins at DSBs, but that Chk2 phosphorylation of BRCA1 also serves as a built-in clock for HR repair of DSBs. BRCA1 is known to inhibit Mre11 nuclease activity. SCF<sup>Skp2</sup> activity appears at late G1 and peaks at S/G2, and is known to ubiquitinate phosphodegron motifs. The removal of BRCA1 from DSBs by SCF<sup>Skp2</sup>-mediated degradation terminates BRCA1-mediated inhibition of Mre11 nuclease activity, allowing for end resection and restricting the initiation of HR to the S/G2 phases of the cell cycle.
DOI: 10.6084/m9.figshare.1301966
title: Study1SeeingRedData

description: Data for PLOSONE Manuscript "Seeing Red: Anger Increases How Much Republican Identification Predicts Partisan Attitudes and Perceived Polarization"
DOI: 10.6084/m9.figshare.1301967.v1
title: Study2Data

description: Data for PLOSONE Manuscript "Seeing Red: Anger Increases How Much Republican Identification Predicts Partisan Attitudes and Perceived Polarization"
DOI: 10.6084/m9.figshare.1301967.v2
title: Study2SeeingRedData

description: Data for PLOSONE Manuscript "Seeing Red: Anger Increases How Much Republican Identification Predicts Partisan Attitudes and Perceived Polarization"
DOI: 10.6084/m9.figshare.1301966.v1
title: Study1SeeingRedData

description: Data for PLOSONE Manuscript "Seeing Red: Anger Increases How Much Republican Identification Predicts Partisan Attitudes and Perceived Polarization"
DOI: 10.6084/m9.figshare.1301962
title: Edital de chamada de artigos EPAEP 2015

description: Edital com as instruções normativas para submissão de artigos ao EPAEP 2015.
DOI: 10.6084/m9.figshare.1301971.v2
title: Damage-induced BRCA1 phosphorylation by Chk2 contributes to the timing of end resection

description: The BRCA1 tumor suppressor plays an important role in homologous recombination (HR)-mediated DNA double-strand-break (DSB) repair. BRCA1 is phosphorylated by Chk2 kinase upon γ-irradiation, but the role of Chk2 phosphorylation is not understood. Here, we report that abrogation of Chk2 phosphorylation on BRCA1 delays end resection and the dispersion of BRCA1 from DSBs but does not affect the assembly of Mre11/Rad50/NBS1 (MRN) and CtIP at DSBs. Moreover, we show that BRCA1 is ubiquitinated by SCF<sup>Skp2</sup> and that abrogation of Chk2 phosphorylation impairs its ubiquitination. Our study suggests that BRCA1 is more than a scaffold protein to assemble HR repair proteins at DSBs, but that Chk2 phosphorylation of BRCA1 also serves as a built-in clock for HR repair of DSBs. BRCA1 is known to inhibit Mre11 nuclease activity. SCF<sup>Skp2</sup> activity appears at late G1 and peaks at S/G2, and is known to ubiquitinate phosphodegron motifs. The removal of BRCA1 from DSBs by SCF<sup>Skp2</sup>-mediated degradation terminates BRCA1-mediated inhibition of Mre11 nuclease activity, allowing for end resection and restricting the initiation of HR to the S/G2 phases of the cell cycle.
DOI: 10.6084/m9.figshare.1301971.v4
title: Damage-induced BRCA1 phosphorylation by Chk2 contributes to the timing of end resection

description: The BRCA1 tumor suppressor plays an important role in homologous recombination (HR)-mediated DNA double-strand-break (DSB) repair. BRCA1 is phosphorylated by Chk2 kinase upon γ-irradiation, but the role of Chk2 phosphorylation is not understood. Here, we report that abrogation of Chk2 phosphorylation on BRCA1 delays end resection and the dispersion of BRCA1 from DSBs but does not affect the assembly of Mre11/Rad50/NBS1 (MRN) and CtIP at DSBs. Moreover, we show that BRCA1 is ubiquitinated by SCF<sup>Skp2</sup> and that abrogation of Chk2 phosphorylation impairs its ubiquitination. Our study suggests that BRCA1 is more than a scaffold protein to assemble HR repair proteins at DSBs, but that Chk2 phosphorylation of BRCA1 also serves as a built-in clock for HR repair of DSBs. BRCA1 is known to inhibit Mre11 nuclease activity. SCF<sup>Skp2</sup> activity appears at late G1 and peaks at S/G2, and is known to ubiquitinate phosphodegron motifs. The removal of BRCA1 from DSBs by SCF<sup>Skp2</sup>-mediated degradation terminates BRCA1-mediated inhibition of Mre11 nuclease activity, allowing for end resection and restricting the initiation of HR to the S/G2 phases of the cell cycle.
DOI: 10.6084/m9.figshare.1301962.v1
title: Edital de chamada de artigos EPAEP 2015

description: Edital com as instruções normativas para submissão de artigos ao EPAEP 2015.
DOI: 10.6084/m9.figshare.1301971.v3
title: Damage-induced BRCA1 phosphorylation by Chk2 contributes to the timing of end resection

description: The BRCA1 tumor suppressor plays an important role in homologous recombination (HR)-mediated DNA double-strand-break (DSB) repair. BRCA1 is phosphorylated by Chk2 kinase upon γ-irradiation, but the role of Chk2 phosphorylation is not understood. Here, we report that abrogation of Chk2 phosphorylation on BRCA1 delays end resection and the dispersion of BRCA1 from DSBs but does not affect the assembly of Mre11/Rad50/NBS1 (MRN) and CtIP at DSBs. Moreover, we show that BRCA1 is ubiquitinated by SCF<sup>Skp2</sup> and that abrogation of Chk2 phosphorylation impairs its ubiquitination. Our study suggests that BRCA1 is more than a scaffold protein to assemble HR repair proteins at DSBs, but that Chk2 phosphorylation of BRCA1 also serves as a built-in clock for HR repair of DSBs. BRCA1 is known to inhibit Mre11 nuclease activity. SCF<sup>Skp2</sup> activity appears at late G1 and peaks at S/G2, and is known to ubiquitinate phosphodegron motifs. The removal of BRCA1 from DSBs by SCF<sup>Skp2</sup>-mediated degradation terminates BRCA1-mediated inhibition of Mre11 nuclease activity, allowing for end resection and restricting the initiation of HR to the S/G2 phases of the cell cycle.
DOI: 10.6084/m9.figshare.1301942
title: Finite Element Analysis of the Cingulata jaw: an ecomorphological approach to armadillo's diets

description: CAD models of the upcoming article "Finite Element Analysis of the Cingulata jaw: an ecomorphological approach to armadillo's diets" in Plos One Sílvia Serrano-Fochs, Soledad De Esteban-Trivigno, Jordi Marcé-Nogué, Josep Fortuny and Richard A. Fariña<br><br> CAD MODELS: Chaetophractus villosus Priodontes maximus Cabassous unicinctus Chlamyphorus truncatus Chaetophractus vellerosus Dasypus kapplery Dasypus novemcinctus Dasypus sabanicola Euphractus sexcinctus Tolypeutes matacus Zaedyus pichiy Vassallia maxima Eutatus seguini Macroeuphractus outesi
DOI: 10.6084/m9.figshare.1301920
title: SSVEP data (fdt file)

description: SSVEP data fdt to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301921
title: SSVEP data (set file)

description: SSVEP data set to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301918
title: Simulations (set file)

description: Artificial data set to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301915
title: OAE (set file)

description: OAE data fdt to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301916
title: OAE (fdt file)

description: OAE data set to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301917
title: Simulations (fdt file)

description: Artificial data fdt to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301916.v1
title: OAE (fdt file)

description: OAE data set to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301917.v1
title: Simulations (fdt file)

description: Artificial data fdt to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301918.v1
title: Simulations (set file)

description: Artificial data set to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301915.v1
title: OAE (set file)

description: OAE data fdt to validate Matching Pursuit with asymmetric functions algorithm.
DOI: 10.6084/m9.figshare.1301864
title: Tonsillectomy versus tonsillotomy for sleep-disordered breathing in children: a meta analysis

description: Tonsillectomy versus tonsillotomy
DOI: 10.6084/m9.figshare.1301908
title: SEAO Avis

description: Open data from Québec contracts attribution system. Dataset for AVIS (contracts published and signe with all suppliers who bid)
DOI: 10.6084/m9.figshare.1301908.v1
title: SEAO Avis

description: Open data from Québec contracts attribution system. Dataset for AVIS (contracts published and signe with all suppliers who bid)
DOI: 10.6084/m9.figshare.1301912
title: Sonio program

description: SONIO is a program created and developed by Doris Gomez to analyse acoustic data. It runs under a Windows environment
DOI: 10.6084/m9.figshare.1301864.v1
title: Tonsillectomy versus tonsillotomy for sleep-disordered breathing in children: a meta analysis

description: Tonsillectomy versus tonsillotomy
DOI: 10.6084/m9.figshare.1301912.v1
title: Sonio program

description: SONIO is a program created and developed by Doris Gomez to analyse acoustic data. It runs under a Windows environment
DOI: 10.6084/m9.figshare.1301848
title: RATHER Invasive Lobular Breast Cancer Cohort Clinical Database

description: RATHER Invasive Lobular Breast Cancer Cohort Clinical Database
DOI: 10.6084/m9.figshare.1301807
title: Prevention of PKCi effect by the presence of a UAS-GFP construct

description: Description of the experiment and the figures Groups represent a cross between the tubGal80ts;UAS-PKCi line (which is effective in blocking self-learning when expressed pan neuronal) and 2 lines with specific combination of 3 construct: d42Gal4 or c380Gal4, as well as chaGal80 (inhibit Gal4 expression in cholinergic neutrons) and UAS-GFP (used to localize expression). In both cases, we have no effect on self learning. While we know that if the GFP construct is taken out, the prevention works (Colomb et al., in prep), we conclude that the presence of a second UAS element prevents the expression of the PKC inhibitor. <strong>Representation legend .</strong> The score during the final test is depicted in boxplots (bar is the median, boxes are quartiles, bars are 100% of the data not considering the outliers presented by points). <em>Drosophila </em>self-learning. The flies are tethered to a torque meter which measures the angular momentum around the fly's vertical body axis (yaw torque), caused by attempted turning maneuvers. Attempted left (or right) turning maneuvers are punished during training phases and no predictive stimuli are present. Thus, the only predictor of punishment is the behavior of the fly. If the fly continue to avoid the punished behavior when laser is absent during test phases, we talk about self-learning. Scoring and learning protocol. A score corresponding to the proportion of time the fly is doing the safe turning attempt is calculated for each 2 minutes period. Before training the score is around 0 (no preference). During training phases, the score rises since the fly avoid doing the laser punishment. After two rounds of 4 minutes training separated by a 2min test, a final 2 minutes test round is performed. The performance during these two minutes is used for statistical analysis. After the experiment, the torque force of the fly is tested again using its optomotor response and the accuracy of the laser position (the fly is sacrificed by letting the laser on for about 15s). If any of these two tests is not satisfactory, the data is not included in the analysis. <br><br> Detailed information. Only females were tested, flies were grown at 25° and did receive an heat shock (35° for 4 hours) 0.5 to 4 hours before being tested at 25°. NB: data where the pretest score was higher than 0.65 were excluded from the analysis. Full genotype of the flies tested: CS x T_PKCi : tubGal80ts/+;UASPKCi/+ . GFP, c380;chaG80 x T_PKCi : UAS-GFP,C380-GAL4/+;;cha-Gal80/+ . GFP; d42G4,chaG80 x T_PKCi : UAS-GFP;tubGal80ts/+;UASPKCi/d42Gal4,chaGal80 . GFP, c380G4;chaG80 x CS : UAS-GFP,C380-GAL4;tubGal80ts/+;UASPKCi/cha-Gal80 . GFP; d42G4,chaG80 x CS : UAS-GFP;;d42Gal4,chaGal80/+ . ------ flybase numbers: tubGal80<sup>ts</sup>= P{tubP-GAL80ts} (FBtp0017264)[on the 2nd chromosome], d42GAl4= FBti0002759 c380Gal4 = FBti0016294 UAS-GFP = unknown UASPKCi = FBti0010565 cha-Gal80 = unknown
DOI: 10.6084/m9.figshare.1301807.v1
title: Prevention of PKCi effect by the presence of a UAS-GFP construct

description: Description of the experiment and the figures Groups represent a cross between the tubGal80ts;UAS-PKCi line (which is effective in blocking self-learning when expressed pan neuronal) and 2 lines with specific combination of 3 construct: d42Gal4 or c380Gal4, as well as chaGal80 (inhibit Gal4 expression in cholinergic neutrons) and UAS-GFP (used to localize expression). In both cases, we have no effect on self learning. While we know that if the GFP construct is taken out, the prevention works (Colomb et al., in prep), we conclude that the presence of a second UAS element prevents the expression of the PKC inhibitor. <strong>Representation legend .</strong> The score during the final test is depicted in boxplots (bar is the median, boxes are quartiles, bars are 100% of the data not considering the outliers presented by points). <em>Drosophila </em>self-learning. The flies are tethered to a torque meter which measures the angular momentum around the fly's vertical body axis (yaw torque), caused by attempted turning maneuvers. Attempted left (or right) turning maneuvers are punished during training phases and no predictive stimuli are present. Thus, the only predictor of punishment is the behavior of the fly. If the fly continue to avoid the punished behavior when laser is absent during test phases, we talk about self-learning. Scoring and learning protocol. A score corresponding to the proportion of time the fly is doing the safe turning attempt is calculated for each 2 minutes period. Before training the score is around 0 (no preference). During training phases, the score rises since the fly avoid doing the laser punishment. After two rounds of 4 minutes training separated by a 2min test, a final 2 minutes test round is performed. The performance during these two minutes is used for statistical analysis. After the experiment, the torque force of the fly is tested again using its optomotor response and the accuracy of the laser position (the fly is sacrificed by letting the laser on for about 15s). If any of these two tests is not satisfactory, the data is not included in the analysis. <br><br> Detailed information. Only females were tested, flies were grown at 25° and did receive an heat shock (35° for 4 hours) 0.5 to 4 hours before being tested at 25°. NB: data where the pretest score was higher than 0.65 were excluded from the analysis. Full genotype of the flies tested: CS x T_PKCi : tubGal80ts/+;UASPKCi/+ . GFP, c380;chaG80 x T_PKCi : UAS-GFP,C380-GAL4/+;;cha-Gal80/+ . GFP; d42G4,chaG80 x T_PKCi : UAS-GFP;tubGal80ts/+;UASPKCi/d42Gal4,chaGal80 . GFP, c380G4;chaG80 x CS : UAS-GFP,C380-GAL4;tubGal80ts/+;UASPKCi/cha-Gal80 . GFP; d42G4,chaG80 x CS : UAS-GFP;;d42Gal4,chaGal80/+ . ------ flybase numbers: tubGal80<sup>ts</sup>= P{tubP-GAL80ts} (FBtp0017264)[on the 2nd chromosome], d42GAl4= FBti0002759 c380Gal4 = FBti0016294 UAS-GFP = unknown UASPKCi = FBti0010565 cha-Gal80 = unknown
DOI: 10.6084/m9.figshare.1301765
title: Response matrix used to train artifical neural network models

description: Permanent, publicly accessible data associated with the results manuscript to be submitted for peer review - <em>Transforming floristic data into vegetation attributes and predicting their spatial patterns across landscapes</em>
DOI: 10.6084/m9.figshare.1301774
title: Determination of zygosity in adult Chinese twins using the 450K methylation array versus questionnaire data

description: This data file includes the 65snps information for twins zygosity determination based on IBD analysis, the sample sheet, zygosity questionnaire and the code for generating the results.
DOI: 10.6084/m9.figshare.1301774.v1
title: Determination of zygosity in adult Chinese twins using the 450K methylation array versus questionnaire data

description: This data file includes the 65snps information for twins zygosity determination based on IBD analysis, the sample sheet, zygosity questionnaire and the code for generating the results.
DOI: 10.6084/m9.figshare.1301765.v3
title: Response matrix used to train artifical neural network models

description: Permanent, publicly accessible data associated with the results manuscript to be submitted for peer review - <em>Transforming floristic data into vegetation attributes and predicting their spatial patterns across landscapes</em>
DOI: 10.6084/m9.figshare.1301765.v2
title: Response matrix used to train artifical neural network models

description: Permanent, publicly accessible data associated with the results manuscript to be submitted for peer review - <em>Transforming floristic data into vegetation attributes and predicting their spatial patterns across landscapes</em>
DOI: 10.6084/m9.figshare.1301683
title: Open Database Bifeprunox (version 1.0): 1- Clinical Trial Registries (ClinicalTrials.gov & EudraCT); 2- List of publications in academic journals (PubMed and Embase) | Date: Feb 5, 2015

description: Google Spreadsheet open (URL below)
DOI: 10.6084/m9.figshare.1301655
title: PsbS is required for systemic acquired acclimation and post-excess-light-stress optimization of chlorophyll fluorescence decay times in <i>Arabidopsis</i>

description: Systemic acquired acclimation (SAA) is an important light acclimatory mechanism that depends on the global adjustments of non-photochemical quenching and chloroplast retrograde signaling. As the exact regulation of these processes is not known, we measured time-resolved fluorescence of chlorophyll <i>a</i> in <i>Arabidopsis thaliana</i> leaves exposed to excess light, in leaves undergoing SAA, and in leaves after excess light episode. We compare the behavior induced in wild-type plants with null mutant of non-photochemical quenching (<i>npq4–1</i>). The wild type rosettes exhibit a small reduction of fluorescence decay times in leaves directly exposed to excess light and in leaves undergoing SAA in ambient low light. However in <i>npq4–1</i> exposition to excess light results in much faster fluorescence decay, which is insensitive to excitation power. At the same time <i>npq4–1</i> leaves undergoing SAA displayed intermediate fluorescence decay. The <i>npq4–1</i> plants also lost the ability to optimize florescence decay, and thus chlorophyll <i>a</i> dynamics up to 2 h after excess light episode. The fluorescence decay dynamics in both WT and <i>npq4–1</i> can be described by a set of 3 maximum decay times. Based on the results, we concluded that functional PsbS is required for optimization of absorbed photon fate and optimal light acclimatory responses such as SAA or after excess light stress.
DOI: 10.6084/m9.figshare.1301683.v1
title: Open Database Bifeprunox (version 1.0): 1- Clinical Trial Registries (ClinicalTrials.gov & EudraCT); 2- List of publications in academic journals (PubMed and Embase) | Date: Feb 5, 2015

description: Google Spreadsheet open (URL below)
DOI: 10.6084/m9.figshare.1301654
title: Supplementary Material for Kindsvater and Alonzo 2014 Proc B

description: This is supplementary material for <strong>Kindsvater HK</strong> & Alonzo SH. 2014. Females allocate differentially to offspring size and number in response to male effects on female and offspring fitness. <em>Proc. R. Soc. B</em> 281, 20131981 It includes the online appendix and the code used for the analyses in Figure 4.
DOI: 10.6084/m9.figshare.1301654.v1
title: Supplementary Material for Kindsvater and Alonzo 2014 Proc B

description: This is supplementary material for <strong>Kindsvater HK</strong> & Alonzo SH. 2014. Females allocate differentially to offspring size and number in response to male effects on female and offspring fitness. <em>Proc. R. Soc. B</em> 281, 20131981 It includes the online appendix and the code used for the analyses in Figure 4.