cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.8869592.v1
title: Supplementary Material for: Percent Consonant Correct as an Outcome Measure for Cleft Speech in an Intervention Study

description: <b><i>Background/Aims:</i></b> Percent consonant correct (PCC) was originally described by Shriberg and Kwiatkowski [J Speech Hear Disord. 1982 Aug;47(3):256–70] as a severity metric for phonological speech disorders, and has been adapted and used in many studies on speech sound disorders. It is well-recognized that cleft speech is complex, consisting of several interacting parameters assessed simultaneously, with error sounds not in the listener’s own language. In speech outcome studies, narrow phonetic transcription and the reporting of intra- and inter-rater reliability are acknowledged as the gold standard. However, cleft speech brings special challenges to this task, as complex speech disorders are known to be associated with low transcriber agreement. Recent studies informed the decision to use PCC as the primary outcome measure in a cleft speech intervention study, given its common usage and familiarity. The aim was to specifically evaluate the intra- and inter-rater reliability of PCC in an intervention study, in contrast to other types of speech outcome studies. <b><i>Methods:</i></b> Two trained and experienced listeners analyzed 119 recordings, randomly selected from five data points before, during, and following intervention. The PCC score was separately calculated for words and sentences/phrases. <b><i>Results:</i></b> Using intraclass correlations (ICCs), Phase 1 results showed poor reliability for targets elicited for words (ICC = 0.07) and sentences/phrases (ICC = 0.42). Differences in classification of errors as glottal stops and consonant deletion accounted for this. Following further training, a second reliability study was undertaken showing improvement in the number of targets elicited in words (ICC = 0.85) and sentences/phrases (ICC = 0.94). There was very good inter-rater reliability for the PCC score on the word dataset (ICC = 0.9) and the sentence dataset (ICC = 0.88). Very good intra-rater reliability (ICC = 1.0) was found for the PCC score in both words and sentences/phrases for each listener. One listener consistently gave higher modified PCC scores. <b><i>Conclusions:</i></b> In cleft speech intervention studies, reliability of the number of targets elicited should be reported. Listeners need to distinguish between glottal articulation and consonant deletion, in order that the PCC score is meaningful. Attention should be paid to where listeners are reliable, but their pattern of scores consistently differs but in a consistent way. More research is needed on measuring the resolution of articulation difficulties in cleft intervention studies.
DOI: 10.6084/m9.figshare.8869508
title: Supplementary Material for: A New Generation Somatostatin-Dopamine Analogue Exerts Potent Antitumoral Actions on Pituitary Neuroendocrine Tumor Cells

description: <b><i>Background:</i></b> Pituitary neuroendocrine tumors (PitNETs) represent approximately 15% of all intracranial tumors and usually are associated with severe comorbidities. Unfortunately, a relevant number of patients do not respond to currently available pharmacological treatments, that is, somatostatin analogs (SSAs) or dopamine-agonists (DA). Thus, novel, chimeric somatostatin/dopamine compounds (dopastatins) that could improve medical treatment of PitNETs have been designed. <b><i>Objective:</i></b> This study aims to determine the direct therapeutic effects of a new-generation dopastatin, BIM-065, on primary cell cultures from different PitNETs subtypes. <b><i>Methods:</i></b> Thirty-one PitNET-derived cell cultures (9 corticotropinomas, 9 somatotropinomas, 11 nonfunctioning pituitary adenomas [NFPAs], and 2 prolactinomas), were treated with BIM-065, and key functional endpoints were assessed (cell viability, apoptosis, hormone secretion, expression levels of key genes, free cytosolic [Ca<sup>2+</sup>]<sub>i</sub> dynamics, etc.). AtT-20 cell line was used to evaluate signaling pathways in response to BIM-065. <b><i>Results:</i></b> This chimeric compound decreased cell viability in all corticotropinomas and somatotropinomas tested, but not in NFPAs. BIM-065 reduced ACTH, GH, chromogranin-A and PRL secretion, and increased apoptosis in corticotropinomas, somatotropinomas, and NFPAs. These effects were possibly mediated through modulation of pivotal signaling cascades like [Ca<sup>2+</sup>]<sub>i</sub> kinetic and Akt- or ERK1/2-phosphorylation. <b><i>Conclusions:</i></b> Our results unveil a robust antitumoral effect in vitro of the novel chimeric compound BIM-065 on the main PitNET subtypes, inform on the mechanisms involved, and suggest that BIM-065 could be an efficacious therapeutic option to be considered in the treatment of PitNETs.
DOI: 10.6084/m9.figshare.8869499
title: Supplementary Material for: Temozolomide Alone or Combined with Capecitabine for the Treatment of Advanced Pancreatic Neuroendocrine Tumor

description: <b><i>Background:</i></b> The combination of capecitabine (CAP) with temozolomide (TEM) chemotherapy in advanced pancreatic neuroendocrine tumors (PanNET) relies on limited evidence. We compared TEM-CAP to TEM alone in patients with advanced PanNET. <b><i>Methods:</i></b> Consecutive patients with advanced PanNET treated with TEM or TEM-CAP between 2004 and 2017 in three expert centers were included. Progression-free survival (PFS), tolerance, tumor response, and overall survival were compared between the two groups. Propensity-based analyses were performed to reduce confounding bias due to the nonrandomized setting. <b><i>Results:</i></b> TEM and TEM-CAP were administered to 38 patients and 100 patients, respectively, with a median age of 58 years. The patients in the TEM group more often had hormonal syndromes (<i>p</i> = 0.03), a longer median delay to diagnosis (<i>p</i> = 0.001), and a higher number of pretreatment lines (<i>p</i> &lt; 0.001). The performance status was 0 in 58% versus 65% of the patients, and tumor’s median Ki-67 index was 8% versus 11%, respectively. Tolerance was similar, except that there were more cases of asthenia in the TEM group (<i>p</i> = 0.017) and more cases of hand-foot syndrome in the TEM-CAP group (<i>p</i> = 0.025). The objective response rate was 34% versus 51% (<i>p</i> = 0.088). The raw median PFS was similar with TEM and with TEM-CAP (21.4 vs. 19.8 months, <i>p</i> = 0.84). Although CAP tended to decrease the risk of progression in Cox multivariate analysis (HR 0.65, <i>p</i> = 0.12), it had no effect after adjustment for the propensity score (HR 1.06, <i>p</i> = 0.80). <b><i>Conclusions:</i></b> TEM-CAP might not prolong PFS but might achieve a higher response rate than TEM alone. Hence, TEM-CAP might be preferred when tumor shrinkage is the main therapeutic objective. Otherwise, TEM might be adequate for patients with an impaired performance status or in case of extrahepatic metastases.
DOI: 10.6084/m9.figshare.8869508.v1
title: Supplementary Material for: A New Generation Somatostatin-Dopamine Analogue Exerts Potent Antitumoral Actions on Pituitary Neuroendocrine Tumor Cells

description: <b><i>Background:</i></b> Pituitary neuroendocrine tumors (PitNETs) represent approximately 15% of all intracranial tumors and usually are associated with severe comorbidities. Unfortunately, a relevant number of patients do not respond to currently available pharmacological treatments, that is, somatostatin analogs (SSAs) or dopamine-agonists (DA). Thus, novel, chimeric somatostatin/dopamine compounds (dopastatins) that could improve medical treatment of PitNETs have been designed. <b><i>Objective:</i></b> This study aims to determine the direct therapeutic effects of a new-generation dopastatin, BIM-065, on primary cell cultures from different PitNETs subtypes. <b><i>Methods:</i></b> Thirty-one PitNET-derived cell cultures (9 corticotropinomas, 9 somatotropinomas, 11 nonfunctioning pituitary adenomas [NFPAs], and 2 prolactinomas), were treated with BIM-065, and key functional endpoints were assessed (cell viability, apoptosis, hormone secretion, expression levels of key genes, free cytosolic [Ca<sup>2+</sup>]<sub>i</sub> dynamics, etc.). AtT-20 cell line was used to evaluate signaling pathways in response to BIM-065. <b><i>Results:</i></b> This chimeric compound decreased cell viability in all corticotropinomas and somatotropinomas tested, but not in NFPAs. BIM-065 reduced ACTH, GH, chromogranin-A and PRL secretion, and increased apoptosis in corticotropinomas, somatotropinomas, and NFPAs. These effects were possibly mediated through modulation of pivotal signaling cascades like [Ca<sup>2+</sup>]<sub>i</sub> kinetic and Akt- or ERK1/2-phosphorylation. <b><i>Conclusions:</i></b> Our results unveil a robust antitumoral effect in vitro of the novel chimeric compound BIM-065 on the main PitNET subtypes, inform on the mechanisms involved, and suggest that BIM-065 could be an efficacious therapeutic option to be considered in the treatment of PitNETs.
DOI: 10.6084/m9.figshare.8869493
title: Woodward et al. 2D Excitable Plankton Model Code from Physical flow effects can dictate plankton population dynamics

description: MATLAB code for simulating the 2D model
DOI: 10.6084/m9.figshare.8869490
title: Woodward et al. Graph Plotting Code from Physical flow effects can dictate plankton population dynamics

description: MATLAB code for plotting graphs for Figures 5, 6 and 7a
DOI: 10.6084/m9.figshare.8869484
title: Woodward et al. Graph Plotting Data from Physical flow effects can dictate plankton population dynamics

description: MATLAB data file for plotting graphs for Figures 5, 6 and 7a
DOI: 10.6084/m9.figshare.8869487
title: Woodward et al. 1D Excitable Plankton Model Code from Physical flow effects can dictate plankton population dynamics

description: MATLAB code for simulating the 1D model
DOI: 10.6084/m9.figshare.8869493.v1
title: Woodward et al. 2D Excitable Plankton Model Code from Physical flow effects can dictate plankton population dynamics

description: MATLAB code for simulating the 2D model
DOI: 10.6084/m9.figshare.8869484.v1
title: Woodward et al. Graph Plotting Data from Physical flow effects can dictate plankton population dynamics

description: MATLAB data file for plotting graphs for Figures 5, 6 and 7a
DOI: 10.6084/m9.figshare.8869490.v1
title: Woodward et al. Graph Plotting Code from Physical flow effects can dictate plankton population dynamics

description: MATLAB code for plotting graphs for Figures 5, 6 and 7a
DOI: 10.6084/m9.figshare.8869487.v1
title: Woodward et al. 1D Excitable Plankton Model Code from Physical flow effects can dictate plankton population dynamics

description: MATLAB code for simulating the 1D model
DOI: 10.6084/m9.figshare.8869433
title: On the development of sleep states in the first weeks of life

description: Related to https://www.biorxiv.org/content/10.1101/678144v1<br>
DOI: 10.6084/m9.figshare.8869385
title: HIV-1 Gag MA/CActd complex simulated point mutation trajectory data

description: Files contain tables with first column representing time and second column representing distance between centers of mass of residues 43 and 344 in MA and CActd domains, respectively.<br>The number of point mutations is indicated in the name of each file.
DOI: 10.6084/m9.figshare.8869391
title: Single nucleotide polymorphism rs13079080 is associated with differential regulation of the succinate receptor 1 (SUCNR1) gene by miRNA-4470

description: Oxidative stress is a feature of many common diseases. It leads to excessive formation and subsequent release of the mitochondrial metabolite succinate, which acts as a signalling molecule through binding the succinate receptor (SUCNR1). Recently, a potential role for SUCNR1 was proposed in age-related macular degeneration (AMD), a common cause of vision loss in the elderly associated with increased oxidative stress. Here, we evaluated the potential effect of genetic variants in <i>SUCNR1</i> on its expression through differential micro-RNA (miRNA) binding to target mRNA, and investigated the relevance of altered <i>SUCNR1</i> expression in AMD pathogenesis. We analysed common <i>SUCNR1</i> SNPs for potential miRNA binding sites and identified rs13079080, located in the 3ʹ-UTR and binding site for miRNA-4470. Both miRNA-4470 and <i>SUCNR1</i> were found to be expressed in human retina. Moreover, using a luciferase reporter assay, a 60% decrease in activity was observed when miRNA-4470 was co-expressed with the C allele compared to the T allele of rs13079080. Finally, genotyping rs13079080 in an AMD case-control cohort revealed a protective effect of the TT genotype on AMD compared to the CC genotype (p = 0.007, odds ratio = 0.66). However, the association was not confirmed in the case-control study of the International AMD Genomics Consortium. Our study demonstrates that the T allele of rs13079080 in <i>SUCNR1</i> disrupts a binding site for miRNA-4470, potentially increasing <i>SUCNR1</i> expression and consequently increasing the capacity of sensing and dealing with oxidative stress. Therefore, it would be worthwhile assessing the relevance of rs13079080 in other oxidative stress-associated diseases in future studies.
DOI: 10.6084/m9.figshare.8869337
title: PDHP data for submission.savAssessing knowledge and behavioural changes on maternal and newborn health among mothers following post-earthquake health promotion in Nepal

description: The data was collected among the women affected by the earthquake in Dhading district in Nepal. The outcome variables included: knowledge of danger signs of pregnancy, childbirth and in newborns; and behaviors including ever attending antenatal care (ANC), a minimum of four ANC sessions and having an institutional delivery.
DOI: 10.6084/m9.figshare.8869385.v1
title: HIV-1 Gag MA/CActd complex simulated point mutation trajectory data

description: Files contain tables with first column representing time and second column representing distance between centers of mass of residues 43 and 344 in MA and CActd domains, respectively.<br>The number of point mutations is indicated in the name of each file.
DOI: 10.6084/m9.figshare.8869391.v2
title: Single nucleotide polymorphism rs13079080 is associated with differential regulation of the succinate receptor 1 (SUCNR1) gene by miRNA-4470

description: Oxidative stress is a feature of many common diseases. It leads to excessive formation and subsequent release of the mitochondrial metabolite succinate, which acts as a signalling molecule through binding the succinate receptor (SUCNR1). Recently, a potential role for SUCNR1 was proposed in age-related macular degeneration (AMD), a common cause of vision loss in the elderly associated with increased oxidative stress. Here, we evaluated the potential effect of genetic variants in <i>SUCNR1</i> on its expression through differential micro-RNA (miRNA) binding to target mRNA, and investigated the relevance of altered <i>SUCNR1</i> expression in AMD pathogenesis. We analysed common <i>SUCNR1</i> SNPs for potential miRNA binding sites and identified rs13079080, located in the 3ʹ-UTR and binding site for miRNA-4470. Both miRNA-4470 and <i>SUCNR1</i> were found to be expressed in human retina. Moreover, using a luciferase reporter assay, a 60% decrease in activity was observed when miRNA-4470 was co-expressed with the C allele compared to the T allele of rs13079080. Finally, genotyping rs13079080 in an AMD case-control cohort revealed a protective effect of the TT genotype on AMD compared to the CC genotype (p = 0.007, odds ratio = 0.66). However, the association was not confirmed in the case-control study of the International AMD Genomics Consortium. Our study demonstrates that the T allele of rs13079080 in <i>SUCNR1</i> disrupts a binding site for miRNA-4470, potentially increasing <i>SUCNR1</i> expression and consequently increasing the capacity of sensing and dealing with oxidative stress. Therefore, it would be worthwhile assessing the relevance of rs13079080 in other oxidative stress-associated diseases in future studies.
DOI: 10.6084/m9.figshare.8869337.v1
title: PDHP data for submission.savAssessing knowledge and behavioural changes on maternal and newborn health among mothers following post-earthquake health promotion in Nepal

description: The data was collected among the women affected by the earthquake in Dhading district in Nepal. The outcome variables included: knowledge of danger signs of pregnancy, childbirth and in newborns; and behaviors including ever attending antenatal care (ANC), a minimum of four ANC sessions and having an institutional delivery.
DOI: 10.6084/m9.figshare.8869391.v1
title: Single nucleotide polymorphism rs13079080 is associated with differential regulation of the succinate receptor 1 (SUCNR1) gene by miRNA-4470

description: Oxidative stress is a feature of many common diseases. It leads to excessive formation and subsequent release of the mitochondrial metabolite succinate, which acts as a signalling molecule through binding the succinate receptor (SUCNR1). Recently, a potential role for SUCNR1 was proposed in age-related macular degeneration (AMD), a common cause of vision loss in the elderly associated with increased oxidative stress. Here, we evaluated the potential effect of genetic variants in <i>SUCNR1</i> on its expression through differential micro-RNA (miRNA) binding to target mRNA, and investigated the relevance of altered <i>SUCNR1</i> expression in AMD pathogenesis. We analysed common <i>SUCNR1</i> SNPs for potential miRNA binding sites and identified rs13079080, located in the 3ʹ-UTR and binding site for miRNA-4470. Both miRNA-4470 and <i>SUCNR1</i> were found to be expressed in human retina. Moreover, using a luciferase reporter assay, a 60% decrease in activity was observed for miRNA-4470 when co-expressed with the C allele compared to the T allele of rs13079080. Finally, genotyping rs13079080 in an AMD case-control cohort revealed a protective effect of the TT genotype on AMD compared to the CC genotype (p=0.007, odds ratio= 0.66). However, the association was not confirmed in the case-control study of the International AMD Genomics Consortium. Our study demonstrates that the T allele of rs13079080 in <i>SUCNR1</i> disrupts a binding site for miRNA-4470, potentially increasing <i>SUCNR1</i> expression and consequently increasing the capacity of sensing and dealing with oxidative stress. Therefore, it would be worthwhile assessing the relevance of rs13079080 in other oxidative stress-associated diseases in future studies.
DOI: 10.6084/m9.figshare.8869286
title: Additional file 2: of Red cell distribution width and preeclampsia: a systematic review and meta-analysis

description: Characteristics of all the studies included in the systematic review and meta-analysis. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8869283
title: Additional file 1: of Red cell distribution width and preeclampsia: a systematic review and meta-analysis

description: Characteristics of the mild and severe preeclampsia studies included in the systematic review and meta-analysis. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.8869283.v1
title: Additional file 1: of Red cell distribution width and preeclampsia: a systematic review and meta-analysis

description: Characteristics of the mild and severe preeclampsia studies included in the systematic review and meta-analysis. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.8869286.v1
title: Additional file 2: of Red cell distribution width and preeclampsia: a systematic review and meta-analysis

description: Characteristics of all the studies included in the systematic review and meta-analysis. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8869253
title: Reemeyer and Rees supplement

description: This zip folder contains the R script, data, and figures associated with Reemeyer and Rees (<i>in review</i>), Standardizing the determination and interpretation of <i>P<sub>crit</sub> </i>in fishes. https://doi.org/10.1101/703991
DOI: 10.6084/m9.figshare.8869253.v2
title: Reemeyer and Rees supplement

description: This zip folder contains the R script, data, and figures associated with Reemeyer and Rees (<i>in review</i>), Standardizing the determination and interpretation of <i>P<sub>crit</sub> </i>in fishes. https://doi.org/10.1101/703991
DOI: 10.6084/m9.figshare.8869217
title: Latona, Wallingford, and Fremont Streets Renamed

description: Tabular list of street name changes in several northern Seattle neighborhoods: western University District (Brooklyn); Latona; Wallingford; Fremont; very north Queen Anne; and eastern Ballard.<br>Compiled by hand by reviewing plat, fire insurance, and real estate maps.
DOI: 10.6084/m9.figshare.8869181
title: Double Movements

description: Relationship between the capital-state and neo-nationalism in 35 OECD countries (1980-2015)
DOI: 10.6084/m9.figshare.8869172
title: Supplementary Tables S2

description: Supplementary Tables<br>
DOI: 10.6084/m9.figshare.8869181.v1
title: Double Movements

description: Relationship between the capital-state and neo-nationalism in 35 OECD countries (1980-2015)
DOI: 10.6084/m9.figshare.8869157
title: CASE_Dataset-full

description: This file contains the full (i.e., data from all 30 participants) CASE dataset.
DOI: 10.6084/m9.figshare.8869160
title: CASE_Datatset-snippet

description: This file contains a snippet (i.e., data from only 2 subjects) of the CASE dataset.
DOI: 10.6084/m9.figshare.8869172.v1
title: Supplementary Tables S2

description: Supplementary Tables<br>
DOI: 10.6084/m9.figshare.8869157.v1
title: CASE_Dataset-full

description: This file contains the full (i.e., data from all 30 participants) CASE dataset.
DOI: 10.6084/m9.figshare.8869109
title: Dynamical modeling of multi-scale variability in neuronal competition

description: Data for figures for "Dynamical modeling of multi-scale variability in neuronal competition" publication.
DOI: 10.6084/m9.figshare.8869040
title: Income, Wellbeing, Love for Money Raw Data (.csv)

description: The dataset consists of 113 responses directly taken from a Google Form survey consisting of four demographic questions (age, sex, country, income), a single item on Love for Money, and WHO-5 Wellbeing Questionnaire. This is a completely <b>raw</b> , <b>anonymous</b> dataset. This data was collected as part of a study examining the relationship between <b>income</b> and <b>wellbeing</b> mediated/moderated by <b>love for money</b>.
DOI: 10.6084/m9.figshare.8869043
title: Income, Wellbeing, Love for Money Cleaned Data (.xlsx file)

description: This is a cleaned dataset (any invalid entries have been removed) of 100 responses consisting of data on age, sex, country of residence, region (based on continent), national/abroad (in context of whether the participant is from India or outside), scores on an item measuring love for money, WHO-5 Wellbeing scores and percentiles. The raw dataset for the same is also available. This data was collected as part of a study examining the relationship between income and wellbeing mediated/moderated by love for money. Coding for 'sex' column Male = 1, Female = 2, and Other = 3.
DOI: 10.6084/m9.figshare.8868893.v2
title: Data from Impacts of Directed Species Loss on Community Productivity in a Subtropical Forest Biodiversity Experiment

description: Data supporting the paper: Impacts of Directed Species Loss on Community Productivity in a Subtropical Forest Biodiversity Experiment.1. main_data.xlsx: data of plot-level stand volume and species richness for different extinction scenarios.2. partitioning_data.xlsx: data of additive paritioning of net extinction effects.3. species_info.xlsx: Species names and attributes. 4. JAGS_code_1.r: JAGS code for assessing the effects of species loss on productivity, corresponding to the equations 1-3 in the maintext. 5. JAGS_code_2.r: JAGS code for assessing the temporal trends of net extinction effect or its additive components, corresponding to the equation 8 in the maintext.6. JAGS_code_3.r: JAGS code for comparing effects of species loss among different extinction steps and at different ages, corresponding to the equation 9 in the maintext.