cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23899322
title: Analysis.R from Symbiotic bacteria, immune-like sentinel cells, and the response to pathogens in a social amoeba

description: Some endosymbionts living within a host must modulate their hosts' immune systems in order to infect and persist. We studied the effect of a bacterial endosymbiont on a facultatively multicellular social amoeba host. Aggregates of the amoeba <i>Dictyostelium discoideum</i> contain a subpopulation of sentinel cells that function akin to the immune systems of more conventional multicellular organisms. Sentinel cells sequester and discard toxins from <i>D. discoideum</i> aggregates and may play a central role in defense against pathogens. We measured the number and functionality of sentinel cells in aggregates of <i>D. discoideum</i> infected by bacterial endosymbionts in the genus <i>Paraburkholderia</i>. Infected <i>D. discoideum</i> produced fewer and less functional sentinel cells, suggesting that <i>Paraburkholderia</i> may interfere with its host's immune system. Despite impaired sentinel cells, however, infected <i>D. discoideum</i> were less sensitive to ethidium bromide toxicity, suggesting that <i>Paraburkholderia</i> may also have a protective effect on its host. By contrast, <i>D. discoideum</i> infected by <i>Paraburkholderia</i> did not show differences in their sensitivity to two non-symbiotic pathogens. Our results expand previous work on yet another aspect of the complicated relationship between <i>D. discoideum</i> and <i>Paraburkholderia</i>, which has considerable potential as a model for the study of symbiosis.
DOI: 10.6084/m9.figshare.23899322.v1
title: Analysis.R from Symbiotic bacteria, immune-like sentinel cells, and the response to pathogens in a social amoeba

description: Some endosymbionts living within a host must modulate their hosts' immune systems in order to infect and persist. We studied the effect of a bacterial endosymbiont on a facultatively multicellular social amoeba host. Aggregates of the amoeba <i>Dictyostelium discoideum</i> contain a subpopulation of sentinel cells that function akin to the immune systems of more conventional multicellular organisms. Sentinel cells sequester and discard toxins from <i>D. discoideum</i> aggregates and may play a central role in defense against pathogens. We measured the number and functionality of sentinel cells in aggregates of <i>D. discoideum</i> infected by bacterial endosymbionts in the genus <i>Paraburkholderia</i>. Infected <i>D. discoideum</i> produced fewer and less functional sentinel cells, suggesting that <i>Paraburkholderia</i> may interfere with its host's immune system. Despite impaired sentinel cells, however, infected <i>D. discoideum</i> were less sensitive to ethidium bromide toxicity, suggesting that <i>Paraburkholderia</i> may also have a protective effect on its host. By contrast, <i>D. discoideum</i> infected by <i>Paraburkholderia</i> did not show differences in their sensitivity to two non-symbiotic pathogens. Our results expand previous work on yet another aspect of the complicated relationship between <i>D. discoideum</i> and <i>Paraburkholderia</i>, which has considerable potential as a model for the study of symbiosis.
DOI: 10.6084/m9.figshare.23899325
title: SScell2_total_spore_combined.csv from Symbiotic bacteria, immune-like sentinel cells, and the response to pathogens in a social amoeba

description: Some endosymbionts living within a host must modulate their hosts' immune systems in order to infect and persist. We studied the effect of a bacterial endosymbiont on a facultatively multicellular social amoeba host. Aggregates of the amoeba <i>Dictyostelium discoideum</i> contain a subpopulation of sentinel cells that function akin to the immune systems of more conventional multicellular organisms. Sentinel cells sequester and discard toxins from <i>D. discoideum</i> aggregates and may play a central role in defense against pathogens. We measured the number and functionality of sentinel cells in aggregates of <i>D. discoideum</i> infected by bacterial endosymbionts in the genus <i>Paraburkholderia</i>. Infected <i>D. discoideum</i> produced fewer and less functional sentinel cells, suggesting that <i>Paraburkholderia</i> may interfere with its host's immune system. Despite impaired sentinel cells, however, infected <i>D. discoideum</i> were less sensitive to ethidium bromide toxicity, suggesting that <i>Paraburkholderia</i> may also have a protective effect on its host. By contrast, <i>D. discoideum</i> infected by <i>Paraburkholderia</i> did not show differences in their sensitivity to two non-symbiotic pathogens. Our results expand previous work on yet another aspect of the complicated relationship between <i>D. discoideum</i> and <i>Paraburkholderia</i>, which has considerable potential as a model for the study of symbiosis.
DOI: 10.6084/m9.figshare.23899325.v1
title: SScell2_total_spore_combined.csv from Symbiotic bacteria, immune-like sentinel cells, and the response to pathogens in a social amoeba

description: Some endosymbionts living within a host must modulate their hosts' immune systems in order to infect and persist. We studied the effect of a bacterial endosymbiont on a facultatively multicellular social amoeba host. Aggregates of the amoeba <i>Dictyostelium discoideum</i> contain a subpopulation of sentinel cells that function akin to the immune systems of more conventional multicellular organisms. Sentinel cells sequester and discard toxins from <i>D. discoideum</i> aggregates and may play a central role in defense against pathogens. We measured the number and functionality of sentinel cells in aggregates of <i>D. discoideum</i> infected by bacterial endosymbionts in the genus <i>Paraburkholderia</i>. Infected <i>D. discoideum</i> produced fewer and less functional sentinel cells, suggesting that <i>Paraburkholderia</i> may interfere with its host's immune system. Despite impaired sentinel cells, however, infected <i>D. discoideum</i> were less sensitive to ethidium bromide toxicity, suggesting that <i>Paraburkholderia</i> may also have a protective effect on its host. By contrast, <i>D. discoideum</i> infected by <i>Paraburkholderia</i> did not show differences in their sensitivity to two non-symbiotic pathogens. Our results expand previous work on yet another aspect of the complicated relationship between <i>D. discoideum</i> and <i>Paraburkholderia</i>, which has considerable potential as a model for the study of symbiosis.
DOI: 10.6084/m9.figshare.23899328
title: CureFarmerData.txt from Symbiotic bacteria, immune-like sentinel cells, and the response to pathogens in a social amoeba

description: Some endosymbionts living within a host must modulate their hosts' immune systems in order to infect and persist. We studied the effect of a bacterial endosymbiont on a facultatively multicellular social amoeba host. Aggregates of the amoeba <i>Dictyostelium discoideum</i> contain a subpopulation of sentinel cells that function akin to the immune systems of more conventional multicellular organisms. Sentinel cells sequester and discard toxins from <i>D. discoideum</i> aggregates and may play a central role in defense against pathogens. We measured the number and functionality of sentinel cells in aggregates of <i>D. discoideum</i> infected by bacterial endosymbionts in the genus <i>Paraburkholderia</i>. Infected <i>D. discoideum</i> produced fewer and less functional sentinel cells, suggesting that <i>Paraburkholderia</i> may interfere with its host's immune system. Despite impaired sentinel cells, however, infected <i>D. discoideum</i> were less sensitive to ethidium bromide toxicity, suggesting that <i>Paraburkholderia</i> may also have a protective effect on its host. By contrast, <i>D. discoideum</i> infected by <i>Paraburkholderia</i> did not show differences in their sensitivity to two non-symbiotic pathogens. Our results expand previous work on yet another aspect of the complicated relationship between <i>D. discoideum</i> and <i>Paraburkholderia</i>, which has considerable potential as a model for the study of symbiosis.
DOI: 10.6084/m9.figshare.23899328.v1
title: CureFarmerData.txt from Symbiotic bacteria, immune-like sentinel cells, and the response to pathogens in a social amoeba

description: Some endosymbionts living within a host must modulate their hosts' immune systems in order to infect and persist. We studied the effect of a bacterial endosymbiont on a facultatively multicellular social amoeba host. Aggregates of the amoeba <i>Dictyostelium discoideum</i> contain a subpopulation of sentinel cells that function akin to the immune systems of more conventional multicellular organisms. Sentinel cells sequester and discard toxins from <i>D. discoideum</i> aggregates and may play a central role in defense against pathogens. We measured the number and functionality of sentinel cells in aggregates of <i>D. discoideum</i> infected by bacterial endosymbionts in the genus <i>Paraburkholderia</i>. Infected <i>D. discoideum</i> produced fewer and less functional sentinel cells, suggesting that <i>Paraburkholderia</i> may interfere with its host's immune system. Despite impaired sentinel cells, however, infected <i>D. discoideum</i> were less sensitive to ethidium bromide toxicity, suggesting that <i>Paraburkholderia</i> may also have a protective effect on its host. By contrast, <i>D. discoideum</i> infected by <i>Paraburkholderia</i> did not show differences in their sensitivity to two non-symbiotic pathogens. Our results expand previous work on yet another aspect of the complicated relationship between <i>D. discoideum</i> and <i>Paraburkholderia</i>, which has considerable potential as a model for the study of symbiosis.
DOI: 10.34740/kaggle/dsv/6287146
title: COVID Vaccination in World (updated daily)
DOI: 10.6084/m9.figshare.23932162
title: Oesophageal screening in videofluoroscopic swallow studies: Perceptions and practices of Australian speech-language pathologists

description: There is building evidence that oesophageal screening (OS) should be considered a critical component of videofluoroscopic swallow studies (VFSS). This study surveyed Australian speech-language pathologists (SLPs) regarding current practices and perceptions of OS in VFSS. A 16–24 item online survey was distributed to Australian SLPs via relevant email forums. One response per site was requested. Survey questions explored experience and training in VFSS, skill and confidence with OS, OS protocol use, and pathways following OS. One hundred and one SLPs across all Australian states and territories responded, with 70% (<i>n</i> = 69/99) from metropolitan hospitals and 74% (<i>n</i> = 75/101) having more than five years’ VFSS experience. While 69% (<i>n</i> = 70/101) of SLPs conducted OS, only half (<i>n</i> = 35/70) conducted OS routinely, and only 4% (<i>n</i> = 3/70) always used published OS protocols. Barriers to OS, for some participants, were concerns about scope of practice and confidence. This study confirms higher levels of OS in Australia compared to similar international surveys and provides rich data on the Australian context. Prescriptive clinical guidelines for OS, consensus regarding a preferred OS protocol, and specific OS training may clarify SLP scope of practice and improve SLP confidence and standardisation in OS.
DOI: 10.6084/m9.figshare.23932162.v1
title: Oesophageal screening in videofluoroscopic swallow studies: Perceptions and practices of Australian speech-language pathologists

description: There is building evidence that oesophageal screening (OS) should be considered a critical component of videofluoroscopic swallow studies (VFSS). This study surveyed Australian speech-language pathologists (SLPs) regarding current practices and perceptions of OS in VFSS. A 16–24 item online survey was distributed to Australian SLPs via relevant email forums. One response per site was requested. Survey questions explored experience and training in VFSS, skill and confidence with OS, OS protocol use, and pathways following OS. One hundred and one SLPs across all Australian states and territories responded, with 70% (<i>n</i> = 69/99) from metropolitan hospitals and 74% (<i>n</i> = 75/101) having more than five years’ VFSS experience. While 69% (<i>n</i> = 70/101) of SLPs conducted OS, only half (<i>n</i> = 35/70) conducted OS routinely, and only 4% (<i>n</i> = 3/70) always used published OS protocols. Barriers to OS, for some participants, were concerns about scope of practice and confidence. This study confirms higher levels of OS in Australia compared to similar international surveys and provides rich data on the Australian context. Prescriptive clinical guidelines for OS, consensus regarding a preferred OS protocol, and specific OS training may clarify SLP scope of practice and improve SLP confidence and standardisation in OS.
DOI: 10.6084/m9.figshare.23932168
title: The Timed Water Swallow Test (TWST): Normative data on swallowing capacity for healthy people aged 60 years and older

description: To provide normative data on swallowing capacity (mL/s) in people older than 60 years using the Timed Water Swallow Test (TWST), stratified by sex. Intra- and inter-rater reliability for swallowing time in TWST was further investigated. A total of 165 participants, aged 60 years and above, were included in the study. The time taken to consume 150 mL of tap water and the swallowing capacity (mL/s) was observed in a clinical context using the TWST. Video recordings of the performances were collected for 118 of the 165 participants for inter-rater reliability testing, of which a random set of 25 performances were assessed for intra-rater reliability. Analysis of the agreement between TWST rated by an in-person clinician and rated from a video recording was further evaluated. There were significant age and sex effects observed for swallowing capacity. The average reduction in swallowing capacity in the investigated age range (60–92 years) was 8.8 and 7.3 mL/s, for women and men respectively. The results showed high inter-and intra-rater reliability and agreement between the clinical assessment and the video recording. The presented measurements indicate a clear effect of age on swallowing capacity and that women may be expected to have lower capacity scores than men when tested using TWST. The provided norms can be used as reference points in the clinical identification of people at risk of dysphagia in the older population.
DOI: 10.6084/m9.figshare.23932168.v1
title: The Timed Water Swallow Test (TWST): Normative data on swallowing capacity for healthy people aged 60 years and older

description: To provide normative data on swallowing capacity (mL/s) in people older than 60 years using the Timed Water Swallow Test (TWST), stratified by sex. Intra- and inter-rater reliability for swallowing time in TWST was further investigated. A total of 165 participants, aged 60 years and above, were included in the study. The time taken to consume 150 mL of tap water and the swallowing capacity (mL/s) was observed in a clinical context using the TWST. Video recordings of the performances were collected for 118 of the 165 participants for inter-rater reliability testing, of which a random set of 25 performances were assessed for intra-rater reliability. Analysis of the agreement between TWST rated by an in-person clinician and rated from a video recording was further evaluated. There were significant age and sex effects observed for swallowing capacity. The average reduction in swallowing capacity in the investigated age range (60–92 years) was 8.8 and 7.3 mL/s, for women and men respectively. The results showed high inter-and intra-rater reliability and agreement between the clinical assessment and the video recording. The presented measurements indicate a clear effect of age on swallowing capacity and that women may be expected to have lower capacity scores than men when tested using TWST. The provided norms can be used as reference points in the clinical identification of people at risk of dysphagia in the older population.
DOI: 10.6084/m9.figshare.23932171
title: Evaluating the dose–response relationship of the number of sessions of “It Takes Two to Talk®” in young children with language delay

description: To evaluate the dose–response relationship between the number of It Takes Two to Talk<b>®</b> (ITTT) sessions attended and the language outcomes of young children with language delay and their parent’s responsivity in a multicultural clinical population. A clinical caseload of 273 early language delayed children (mean age 29.2 months, SD 7.8) and their families participated in parent group workshops and individual coaching sessions of the parent responsivity program ITTT. The children’s vocabulary and early syntax, collected using the MacArthur-Bates Communicative Development Inventories and mean length of the three longest utterances respectively, were collated from pre- and post-intervention from pre-existing clinical data. Parental responsivity was evaluated utilising the Parent–Child Interaction checklist at three time points. Multilevel regression was used to determine the relationship between the number of sessions attended and outcomes, while accounting for covariates such as age and language spoken. ITTT dosage did not predict child language outcomes. Rather, vocabulary and early syntax outcomes were predicted by age, pre-scores and parent responsivity at the beginning of treatment. A higher dosage of ITTT did however positively predict parent responsivity, as did speaking only English at home. Socioeconomic status, gender and presence of receptive language difficulties did not contribute significantly to either child or parent outcomes. A lower dosage of the intervention may be considered for parents and children with fewer known risk factors without significant implications.
DOI: 10.6084/m9.figshare.23932171.v1
title: Evaluating the dose–response relationship of the number of sessions of “It Takes Two to Talk®” in young children with language delay

description: To evaluate the dose–response relationship between the number of It Takes Two to Talk<b>®</b> (ITTT) sessions attended and the language outcomes of young children with language delay and their parent’s responsivity in a multicultural clinical population. A clinical caseload of 273 early language delayed children (mean age 29.2 months, SD 7.8) and their families participated in parent group workshops and individual coaching sessions of the parent responsivity program ITTT. The children’s vocabulary and early syntax, collected using the MacArthur-Bates Communicative Development Inventories and mean length of the three longest utterances respectively, were collated from pre- and post-intervention from pre-existing clinical data. Parental responsivity was evaluated utilising the Parent–Child Interaction checklist at three time points. Multilevel regression was used to determine the relationship between the number of sessions attended and outcomes, while accounting for covariates such as age and language spoken. ITTT dosage did not predict child language outcomes. Rather, vocabulary and early syntax outcomes were predicted by age, pre-scores and parent responsivity at the beginning of treatment. A higher dosage of ITTT did however positively predict parent responsivity, as did speaking only English at home. Socioeconomic status, gender and presence of receptive language difficulties did not contribute significantly to either child or parent outcomes. A lower dosage of the intervention may be considered for parents and children with fewer known risk factors without significant implications.
DOI: 10.6084/m9.figshare.14552367.v2
title: COVID-19

description: COVID-19 data is from JHU's database. Education, income and poverty data are from USDA.<br>We have considered the data from Florida, Georgia, North Carolina, New York and Texas.<br>The curated datasets are included here along with a research question and guiding questions.<br>See the codebook for full details.
DOI: 10.6084/m9.figshare.23929917
title: scRNA-seq analysis for striped mice and laboratory mice

description: Code used for scRNA-seq analysis for striped mice and laboratory mice
DOI: 10.6084/m9.figshare.23929917.v1
title: scRNA-seq analysis for striped mice and laboratory mice

description: Code used for scRNA-seq analysis for striped mice and laboratory mice
DOI: 10.57780/en1-4a94d2e
title: Envisat GOMOS Level 1b - Limb spectra [GOM_LIM_1P]

description: Envisat GOMOS Level 1b - Limb spectra [GOM_LIM_1P]
DOI: 10.6084/m9.figshare.23929908
title: Code used for bulk RNA-seq analysis

description: Code used for bulk RNA-seq analysis for striped mouse data from different dorsal regions
DOI: 10.5281/zenodo.8238590
title: Dataset related to "CFH and CFHR structural variants in atypical Hemolytic Uremic Syndrome: Prevalence, genomic characterization and impact on outcome "

description: The upload consists of 2 excel files, including genetic and clinical data, and 6 power point files with western blot images. SMRT sequencing data are deposited in the EBI European Nucletide Archive; Accession number: PRJEB44176.
description: This work was partially supported by Kidneeds Foundation (Kidneeds projects 735/8215 and 698/7603) and by UNEARTH project (project ID 1745126). Rossella Piras, Elisabetta Valoti, Matteo Breno and Miriam Rigoldi are recipients of a research contract from Progetto DDD Onlus-Associazione per la lotta alla DDD (Milan, Italy). Caterina Mele is recipient of a grant from Fondazione Regionale per la Ricerca Biomedica (FRRB; UNEARTH project 1745126). LL is the recipient of a fellowship from Fondazione Aiuti per la Ricerca sulle Malattie Rare ARMR ONLUS (Bergamo, Italy).
DOI: 10.5281/zenodo.8238589
title: Dataset related to "CFH and CFHR structural variants in atypical Hemolytic Uremic Syndrome: Prevalence, genomic characterization and impact on outcome "

description: The upload consists of 2 excel files, including genetic and clinical data, and 6 power point files with western blot images. SMRT sequencing data are deposited in the EBI European Nucletide Archive; Accession number: PRJEB44176.
description: This work was partially supported by Kidneeds Foundation (Kidneeds projects 735/8215 and 698/7603) and by UNEARTH project (project ID 1745126). Rossella Piras, Elisabetta Valoti, Matteo Breno and Miriam Rigoldi are recipients of a research contract from Progetto DDD Onlus-Associazione per la lotta alla DDD (Milan, Italy). Caterina Mele is recipient of a grant from Fondazione Regionale per la Ricerca Biomedica (FRRB; UNEARTH project 1745126). LL is the recipient of a fellowship from Fondazione Aiuti per la Ricerca sulle Malattie Rare ARMR ONLUS (Bergamo, Italy).
DOI: 10.57780/en1-394f962
title: Envisat GOMOS Geolocated Calibrated Transmission Spectra and Photometer Fluxes [GOM_TRA_1P]

description: Envisat GOMOS Geolocated Calibrated Transmission Spectra and Photometer Fluxes [GOM_TRA_1P]
DOI: 10.5281/zenodo.3707749
title: Test data for running snakePipes : noncoding-RNA-seq workflow

description: <strong>Test files for running snakePipes workflows</strong> <strong>snakePipes</strong> are pipelines built using snakemake and python for the analysis of epigenomic datasets. Please refer to this link for further information on snakePipes. This folder contains test files that can be used to run the noncoding-RNA-seq workflow under snakePipes. To test the workflow, follow the following steps : Download or prepare genome fasta, indices and annotations for mouse (<strong>GRCm38</strong>) genome. Repeat Masker file is required for this workflow. Download and install snakePipes via `conda create -n snakePipes -c mpi-ie -c bioconda -c conda-forge snakePipes` Update Genome configuration file with path to indices and annotations. Move to this repository and run the example <strong>command.sh</strong>