cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6618072
title: Supplementary Data for 'Systematic differences in discovery of genetic effects on gene expression and complex traits'

description: This repository contains data used for or generated by Mostafavi et al.: https://doi.org/10.1038/s41588-023-01529-1
DOI: 10.23641/asha.23479574
title: Code-switching in bilingual children with DLD (Gross & Castilla-Earls, 2023)

description: <b>Purpose:</b> This study examined the frequency, direction, and structural characteristics of code-switching (CS) during narratives by Spanish–English bilingual children with and without developmental language disorder (DLD) to determine whether children with DLD exhibit unique features in their CS that may inform clinical decision-making.<b>Method:</b> Spanish–English bilingual children, aged 4;0–6;11 (years;months), with DLD (<i>n</i> = 33) and with typical language development (TLD; <i>n</i> = 33) participated in narrative retell and story generation tasks in Spanish and English. Instances of CS were classified as between utterance or within utterance; within-utterance CS was coded for type of grammatical structure. Children completed the morphosyntax subtests of the Bilingual English-Spanish Assessment to assist in identifying DLD and to index Spanish and English morphosyntactic proficiency.<b>Results:</b> In analyses examining the contributions of both DLD status and Spanish and English proficiency, the only significant effect of DLD was on the tendency to engage in between-utterance CS; children with DLD were more likely than TLD peers to produce whole utterances in English during the Spanish narrative task. Within-utterance CS was related to lower morphosyntax scores in the target language, but there was no effect of DLD. Both groups exhibited noun insertions as the most frequent type of within-utterance CS. However, children with DLD tended to exhibit more determiner and verb insertions than TLD peers and increased use of “congruent lexicalization,” that is, CS utterances that integrate content and function words from both languages.<b>Conclusions: </b>These findings reinforce that use of CS, particularly within-utterance CS, is a typical bilingual behavior even during narrative samples collected in a single-language context. However, language difficulties associated with DLD may emerge in how children code-switch, including use of between-utterance CS and unique patterns during within-utterance CS. Therefore, analyzing CS patterns may contribute to a more complete profile of children’s dual-language skills during assessment.<b>Supplemental Material S1.</b> Participant characteristics by site.<b>Supplemental Material S2.</b> Spearman-rho correlation tables.<b>Supplemental Material S3.</b> Examples of insertion types.Gross, M. C., & Castilla-Earls, A. (2023). Code-switching during narratives by bilingual children with and without developmental language disorder. <i>Language, Speech, and Hearing Services in Schools, 54</i>(3), 996–1019. https://doi.org/10.1044/2023_LSHSS-22-00149
DOI: 10.23641/asha.23479574.v1
title: Code-switching in bilingual children with DLD (Gross & Castilla-Earls, 2023)

description: <b>Purpose:</b> This study examined the frequency, direction, and structural characteristics of code-switching (CS) during narratives by Spanish–English bilingual children with and without developmental language disorder (DLD) to determine whether children with DLD exhibit unique features in their CS that may inform clinical decision-making.<b>Method:</b> Spanish–English bilingual children, aged 4;0–6;11 (years;months), with DLD (<i>n</i> = 33) and with typical language development (TLD; <i>n</i> = 33) participated in narrative retell and story generation tasks in Spanish and English. Instances of CS were classified as between utterance or within utterance; within-utterance CS was coded for type of grammatical structure. Children completed the morphosyntax subtests of the Bilingual English-Spanish Assessment to assist in identifying DLD and to index Spanish and English morphosyntactic proficiency.<b>Results:</b> In analyses examining the contributions of both DLD status and Spanish and English proficiency, the only significant effect of DLD was on the tendency to engage in between-utterance CS; children with DLD were more likely than TLD peers to produce whole utterances in English during the Spanish narrative task. Within-utterance CS was related to lower morphosyntax scores in the target language, but there was no effect of DLD. Both groups exhibited noun insertions as the most frequent type of within-utterance CS. However, children with DLD tended to exhibit more determiner and verb insertions than TLD peers and increased use of “congruent lexicalization,” that is, CS utterances that integrate content and function words from both languages.<b>Conclusions: </b>These findings reinforce that use of CS, particularly within-utterance CS, is a typical bilingual behavior even during narrative samples collected in a single-language context. However, language difficulties associated with DLD may emerge in how children code-switch, including use of between-utterance CS and unique patterns during within-utterance CS. Therefore, analyzing CS patterns may contribute to a more complete profile of children’s dual-language skills during assessment.<b>Supplemental Material S1.</b> Participant characteristics by site.<b>Supplemental Material S2.</b> Spearman-rho correlation tables.<b>Supplemental Material S3.</b> Examples of insertion types.Gross, M. C., & Castilla-Earls, A. (2023). Code-switching during narratives by bilingual children with and without developmental language disorder. <i>Language, Speech, and Hearing Services in Schools, 54</i>(3), 996–1019. https://doi.org/10.1044/2023_LSHSS-22-00149
DOI: 10.25345/c56m33f0s
title: MassIVE MSV000093040 - Analysis of Purified Calpain-2 and Secondary Lipid Oxidation Products In-Vitro with LC-MS/MS and MALDI
title: Secondary lipid oxidation products modify and impact the function of proteins. Identifying where and how these products modify a protein's structure would allow for targeted approaches to mitigate or prevent this modification. Here, we purified calpain-2, a neutral calcium dependent cysteine protease, from porcine skeletal muscle and conducted in-vitro experiments using various concentrations of malondialdehyde, hexenal, and 4-hydroxynoneal. We determined these secondary lipid oxidation products differentially impact calpain-2 proteolytic activity and autolysis. We identified modifications of malondialdehyde and hexenal on calpain-2 with LC-MS/MS approaches. We further evaluated the number of adduction sites on the catalytic and regulatory subunits of calpain-2 through MALDI-TOF approaches. These data demonstrate that secondary lipid oxidation products can modify and differentially impact calpain-2.
DOI: 10.25919/r2gv-bs27
title: Parkes observations for project P960 semester 2023APRS_06

description: We aim to carry out receiver pointing and characterisation tests of Parkes receivers. Typically, these tests are carried out after the receiver package is installed, but time does not always allow for proper characterisation. Receivers for consideration include UWL, MARS and 13MM packages. In addition to cross-referencing C007 for flux calibration via pointing, we aim to conduct gain-elevation and system temperature experiments using the Moon, to ensure users of the Parkes Observatory have the most accurate information available for calibration purposes.
DOI: 10.25919/w8tc-pm29
title: Parkes observations for project P1032 semester 2023APRS_09

description: This project aims to continue to perform rapid measurements of relativistic parameters of southern binary pulsar systems using data from the Parkes Ultra Wideband Low (UWL) receiver and the MeerKAT telescope thereby enabling measurement of their component masses and in some cases, test theories of gravity. We will use the UWL data to obtain significant orbital coverage and timing baseline on these pulsars and obtain important constraints on orbital and temporal DM variations that will help in identifying the nature of the companion star. We will then use MeerKAT data at crucial orbital phases to improve our chances of measuring the relativistic parameters. Increase in the number of measured NS masses has profound implications for NS internal structure and for stellar and binary evolution physics.
DOI: 10.25919/x4ry-gc11
title: Parkes observations for project P885 semester 2023APRS_15

description: We request a continued modest monitoring cadence of once every 10 days for two radio magnetars, to track their rotation, flux density, and polarisation. 1E 1547.0-5408 has just suffered a 'hiccup' in radiative properties as well as in its rotation, and the near-term response to this event remains unclear. Swift J1818.0-1607 remains quite dynamic, and the unique UWL capabilities promise new opportunities to probe still mysterious radio emission mechanisms in magnetars. We will observe XTE J1810-197 and PSR J1622-4950, which has just ceased emission, less frequently. The overall request is 18 hours.
DOI: 10.25338/b8sq0v
title: Dryad dataset awaiting publication

description: :unas
DOI: 10.5281/zenodo.8408515
title: Simulated hydrological effects of grooming and snowmaking in a ski resort on the local water balance

description: Dataset to reproduce Figure 9 in Morin et. al, 2023, Simulated hydrological effects of grooming and snowmaking in a ski resort on the local water balance, Hydro. Earth. Syst. Sci.
DOI: 10.5281/zenodo.8408514
title: Simulated hydrological effects of grooming and snowmaking in a ski resort on the local water balance

description: Dataset to reproduce Figure 9 in Morin et. al, 2023, Simulated hydrological effects of grooming and snowmaking in a ski resort on the local water balance, Hydro. Earth. Syst. Sci.
DOI: 10.6078/d18137
title: Dryad dataset awaiting publication

description: :unas
DOI: 10.25919/j57t-9s96
title: Parkes observations for project P1041 semester 2023APRS_06

description: We propose to continue our long-term timing campaign of millisecond pulsars (MSPs) discovered in the Globular Cluster Omega Centauri. So far, we have discovered seven MSPs and obtained coherent timing solutions for five of them. Monthly observations with the Parkes Ultra-Wideband Low (UWL) receiver system are requested to time known pulsars and search for new pulsars. With a timing baseline of ~3.5 yr we are able to measure the derivative of the spin frequency for the first five pulsars. Upper limits on the pulsar line-of-sight acceleration are estimated and compared with predictions based on analytical models of the cluster. The linearly polarised emission from PSR J1326-4728 yields a rotation measure of -18(8) rad/m^2. Long-term timing observations of these MSPs will provide us a new way to (1) study the dynamics of the core and constrain the existence of any intermediate-mass black holes; (2) reveal the origin of Gamma-ray emission from the core and put stringent constraints on dark matter parameters; (3) study Galactic ionised medium and magnetic fields on parsec scales.
DOI: 10.23641/asha.24126630
title: Sentence verification task for cochlear implants (Patel et al., 2023)

description: <b>Purpose:</b> Tests measuring speech comprehension and listening effort for cochlear implant (CI) users may reflect important aspects of real-world speech communication. In this study, we describe the development of a multiple-talker, English-language sentence verification task (SVT) for use in adult CI users to measure speech comprehension and listening effort. We also examine whether talker differences affect speech comprehension and listening effort.<b>Method:</b> Thirteen experienced adult CI users participated in the study and underwent testing using a newly developed multiple-talker SVT. Participants were sequentially presented with audio recordings of unique sentences spoken in English by six different talkers. Participants classified each sentence as either true or false. Accuracy of classification and the response time (RT) for correct responses were used as measures of comprehension and listening effort, respectively. The effect of talker on the results was further analyzed.<b>Results: </b>All 13 participants successfully completed the SVT. The mean verification accuracy for participants was 87.2% ± 8.8%. The mean RT for correct responses across participants was 1,050 ms ± 391 ms. When stratified by talker, verification accuracy ranged from 83.7% to 95.2% and mean RTs across participant ranged from 786 ms to 1,254 ms. Talker did not have a significant effect on sentence classification accuracy, but it did have a significant effect on RTs (p &lt; .001).<b>Conclusions:</b> The SVT is an easily implemented test that can assess speech comprehension and listening effort simultaneously. CI users may experience increased effort for comprehending certain talkers’ speech, despite showing similar levels of comprehension accuracy.<b>Supplemental Material S1</b>. List of all 48 sentences used in the SVT. Sentence classification accuracy in the pilot testing performed with NH participants in both quiet and vocoder conditions is listed. The talker who produced each sentence for the main experiment along with accuracy achieved by the CI users in the main experiment for each sentence are also listed.Patel, T. R., Moberly, A. C., & Tamati, T. N. (2023). Development of a sentence verification task to measure speech comprehension and listening effort in cochlear implant users. <i>Journal of Speech, Language, and Hearing Research, 66</i>(10), 4150–4159. https://doi.org/10.1044/2023_JSLHR-22-00362
DOI: 10.23641/asha.24126630.v1
title: Sentence verification task for cochlear implants (Patel et al., 2023)

description: <b>Purpose:</b> Tests measuring speech comprehension and listening effort for cochlear implant (CI) users may reflect important aspects of real-world speech communication. In this study, we describe the development of a multiple-talker, English-language sentence verification task (SVT) for use in adult CI users to measure speech comprehension and listening effort. We also examine whether talker differences affect speech comprehension and listening effort.<b>Method:</b> Thirteen experienced adult CI users participated in the study and underwent testing using a newly developed multiple-talker SVT. Participants were sequentially presented with audio recordings of unique sentences spoken in English by six different talkers. Participants classified each sentence as either true or false. Accuracy of classification and the response time (RT) for correct responses were used as measures of comprehension and listening effort, respectively. The effect of talker on the results was further analyzed.<b>Results: </b>All 13 participants successfully completed the SVT. The mean verification accuracy for participants was 87.2% ± 8.8%. The mean RT for correct responses across participants was 1,050 ms ± 391 ms. When stratified by talker, verification accuracy ranged from 83.7% to 95.2% and mean RTs across participant ranged from 786 ms to 1,254 ms. Talker did not have a significant effect on sentence classification accuracy, but it did have a significant effect on RTs (p &lt; .001).<b>Conclusions:</b> The SVT is an easily implemented test that can assess speech comprehension and listening effort simultaneously. CI users may experience increased effort for comprehending certain talkers’ speech, despite showing similar levels of comprehension accuracy.<b>Supplemental Material S1</b>. List of all 48 sentences used in the SVT. Sentence classification accuracy in the pilot testing performed with NH participants in both quiet and vocoder conditions is listed. The talker who produced each sentence for the main experiment along with accuracy achieved by the CI users in the main experiment for each sentence are also listed.Patel, T. R., Moberly, A. C., & Tamati, T. N. (2023). Development of a sentence verification task to measure speech comprehension and listening effort in cochlear implant users. <i>Journal of Speech, Language, and Hearing Research, 66</i>(10), 4150–4159. https://doi.org/10.1044/2023_JSLHR-22-00362
DOI: 10.23641/asha.24121287
title: Nonverbal EF and language in children with DLD (Everaert et al., 2023)

description: <b>Purpose: </b>Developmental language disorder (DLD) is characterized by persistent and unexplained difficulties in language development. Accumulating evidence shows that children with DLD also present with deficits in other cognitive domains, such as executive functioning (EF). There is an ongoing debate on whether exclusively verbal EF abilities are impaired in children with DLD or whether nonverbal EF is also impaired, and whether these EF impairments are related to their language difficulties. The aims of this study were to (a) compare nonverbal performance of preschoolers with DLD and typically developing (TD) peers, (b) examine how nonverbal EF and language abilities are related, and (c) investigate whether a diagnosis of DLD moderates the relationship between EF and language abilities.<b>Method: </b>A total of 143 children (<i>n</i><sub>DLD</sub> = 65, <i>n</i><sub>TD</sub> = 78) participated. All children were between 3 and 6.5 years old and were monolingual Dutch. We assessed nonverbal EF with a visual selective attention task, a visuospatial short-term and working memory task, and a task gauging broad EF abilities. Vocabulary and morphosyntax were each measured with two standardized language tests. We created latent variables for EF, vocabulary, and morphosyntax.<b>Results: </b>Analyses showed that children with DLD were outperformed by their TD peers on all nonverbal EF tasks. Nonverbal EF abilities were related to morphosyntactic abilities in both groups, whereas a relationship between vocabulary and EF skills was found in the TD group only. These relationships were not significantly moderated by a diagnosis of DLD.<b>Conclusions: </b>We found evidence for nonverbal EF impairments in preschool children with DLD. Moreover, nonverbal EF and morphosyntactic abilities were significantly related in these children. These findings may have implications for intervention and support the improvement of prognostic accuracy.<b>Supplemental Material S1.</b> Group comparison on raw and norm scores of each language measure separately.<b>Supplemental Material S2. </b>Correlations between the latent language factors and the separate EF tasks and the latent EF factor.<b>Supplemental Material S3. </b>Correlations between the EF tasks.<b>Supplemental Material S4.</b> Correlations of the latent factors with demographic variables.<b>Supplemental Material S5.</b> Comparison of demographic variables of children who completed the HTKS and those who did not for both groups.<b>Supplemental Material S6. </b>Baseline regression models.Everaert, E., Boerma, T., Selten, I., Gerrits, E., Houben, M., Vorstman, J., & Wijnen, F. (2023). Nonverbal executive functioning in relation to vocabulary and morphosyntax in preschool children with and without developmental language disorder. <i>Journal of Speech, Language, and Hearing Research, 66</i>(10), 3954–3973. https://doi.org/10.1044/2023_JSLHR-22-00732
DOI: 10.5281/zenodo.7093014
title: Multi-method gene clusters at species-level resolution for 125 prokaryotic pangenomes

description: This dataset contains 6 sets of species-level gene clusters and high-resolution species trees for 125 representative bacterial and archaeal species, encompassing a total of 6,851 nearly complete genomes. Each set represents a different approach to homology, orthology, and synteny-based gene clustering as implemented by 4 popular tools for comparative genomics and pangenome analysis (Roary, panX, MMseqs2/PanACoTa, and eggNOG-mapper). This dataset is a helpful resource for benchmarking gene clustering tools and pangenome analysis workflows.
DOI: 10.5281/zenodo.7387758
title: Multi-method gene clusters at species-level resolution for 125 prokaryotic pangenomes

description: This dataset contains 9 sets of species-level gene clusters and high-resolution species trees for 125 representative bacterial and archaeal species, encompassing a total of 6,851 nearly complete genomes. Each set represents a different approach to homology, orthology, and synteny-based gene clustering as implemented by 6 popular tools for comparative genomics and pangenome analysis (Roary, panX, OrthoFinder, MMseqs2/PanACoTa, CD-HIT, and eggNOG-mapper). This dataset is a helpful resource for benchmarking gene clustering tools and pangenome analysis workflows.
description: Changes with respect to previous version: gene clusters have been added for CD-HIT (50% and 80% similarity thresholds) and OrthoFinder.
description: {"references": ["https://www.biorxiv.org/content/10.1101/2022.09.25.509376"]}
DOI: 10.23641/asha.24126432
title: Factors influencing LVC in healthy adults (Werden Abrams et al., 2023)

description: <b>Purpose:</b> Our study aims were (a) to examine laryngeal vestibular closure (LVC) temporal measures in healthy adults across tasks used in the Modified Barium Swallow Impairment Profile (MBSImP) protocol to establish normative reference values and (b) to examine influences of age, gender, and swallow task on LVC temporal measures.<b>Method:</b> A retrospective analysis of 195 healthy adults (85 men, 110 women; age range: 21–89 years) who participated in a videofluoroscopic swallowing study was completed. Seven swallow tasks of standardized viscosities and volumes, as per the MBSImP protocol, were analyzed to measure time-to-LVC and LVC duration (LVCd). Descriptive statistics were employed for all measures of interest. Regression modeling was used to explore relationships between LVC temporal measures (time-to-LVC, LVCd) with age, gender, and swallow task. The relationship between time-to-LVC and LVCd was also explored.<b>Results:</b> Significant findings included an increasing trend in LVCd across age (older individuals had a longer LVCd), with women demonstrating a greater increase. Related to viscosity, LVCd was significantly shorter for pudding compared to thin liquid. Furthermore, when compared to 5-ml tasks, LVCd was significantly longer in cup tasks, while time-to-LVC was significantly shorter. An association was also observed between time-to-LVC and LVCd: As time-to-LVC decreased, LVCd increased.<b>Conclusions:</b> LVCd was influenced by age, gender, and swallow task. Longer time-to-LVC was observed in older individuals, particularly older women, and with thin liquids. Study findings contribute to adult normative reference values for LVC temporal measures (time-to-LVC and LVCd) across MBSImP swallowing tasks.<b>Supplemental Material S1. </b>Descriptive analyses across age category, gender, and swallow tasks.Werden Abrams, S., Petersen, C., Beall, J., Namasivayam-MacDonald, A., Choi, D., & (Focht) Garand, K. L. (2023). Factors influencing laryngeal vestibular closure in healthy adults. <i>Journal of Speech, Language, and Hearing Research, 66</i>(10), 3844–3855. https://doi.org/10.1044/2023_JSLHR-22-00741