cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/tehvh-1cm88
title: T9_wt

description: This was a wt sample prepared with Paul when he was visiting
description: <strong>Tilt Series Date:</strong> 2016-04-30</p>
<strong>Data Taken By:</strong> Poorna Subramanian</p>
<strong>Species / Specimen:</strong> Porphyromonas gingivalis</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 140.0 eV/Å²,  defocus: -8.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Paul Veith and Eric Reynolds</p>
<strong>Purification / Growth Conditions / Treatment:</strong> See pages 84-86</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2016-04-30-30/rawdata/</p>atlas10026.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2016-04-30-30/rawdata/atlas10026.mrc"
        > <i class="download icon"></i> Download </a></p>

        atlas10026_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2016-04-30-30/3dimage_74566/atlas10026_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/sp4kt-20477
title: Vibrio cholerae C6706 ∆lacZ

description: Wild Type Vibrio
description: <strong>Tilt Series Date:</strong> 2015-06-02</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Vibrio cholerae</p>
<strong>Strain:</strong> O1 biovar El Tor</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -8.0 μm,  magnification: 33000x. </p>
<strong>Microscope:</strong> Janelia Titan</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Simon Ringgaard</p>
  aba2015-06-02-7_slicer13867.jpg: big short chemoreceptor array
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-06-02-7/rawdata/</p>VibrioLacZ0007.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-06-02-7/rawdata/VibrioLacZ0007.mrc"
        > <i class="download icon"></i> Download </a></p>

        VibrioLacZ0007_full.rec,  Reconstruction (Pixel Size 1.28 nm), 688.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-06-02-7/3dimage_57863/VibrioLacZ0007_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.17632/ckmkw9vnmp.1
title: BanglaSuicidalTextCorpus: A Corpus for Multi-Class Suicidal Risk Classification in Bengali Texts

description: A dataset of 5,100 labeled texts gathered from Facebook, online blogs, YouTube comments etc. The data was categorized into three classes: no risk, low risk and high risk based on the suicidal sentiments on the text. Annotated by expert reviewers and cross-checked by three more, the dataset is valuable for analyzing suicidal sentiments, and developing advanced natural language processing applications in the domain of sentiment analysis, making it suitable for academic research and practical use in psychological medication.
DOI: 10.22002/an947-6v286
title: NR1769/R1-16 conjugation

description: Grid box YWC234
description: <strong>Tilt Series Date:</strong> 2016-12-08</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain and sample prepared by Carrie Shaffer</p>
  ycw2016-12-08-29_slicer17176.jpg: F-pilus T4SS
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-12-08-29/3dimage_79903/</p>20161208_YWC234_10029_part121_19.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-12-08-29/3dimage_79903/20161208_YWC234_10029_part121_19.rec"
        > <i class="download icon"></i> Download </a></p>

        20161208_YWC234_10029.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-12-08-29/rawdata/20161208_YWC234_10029.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/wrxgd-s4814
title: NR1769/R1-16 conjugation

description: Grid box YWC231 grid1NR1769/R1-16 conjugating with NR1769 skinny E. coli(mixed for 5 min prior to freezing)
description: <strong>Tilt Series Date:</strong> 2016-11-16</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain and sample prepared by Carrie Shaffer</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-16-14/3dimage_79754/</p>20161116_YWC231-1_20014_part121_21.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-16-14/3dimage_79754/20161116_YWC231-1_20014_part121_21.rec"
        > <i class="download icon"></i> Download </a></p>

        20161116_YWC231-1_20014.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-16-14/rawdata/20161116_YWC231-1_20014.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.f9m83r
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chrysichthys nyongensis)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046904-250811113504898/datasets/export for details.
DOI: 10.5281/zenodo.16950727
title: ROR Data

description: Data dump from the Research Organization Registry (ROR), a community-led registry of open identifiers for research organizations.

Release v1.70 contains ROR IDs and metadata for 118,548 research organizations in JSON and CSV format, in schema versions 1 and 2. This includes the addition of 177 new records and metadata updates to 346 existing records. See the release notes.

Data format

Beginning with release v1.45 on 11 April 2024, data releases contain JSON and CSV files formatted according to both  schema v1 and schema v2. v2 files have `_schema_v2` appended to the end of the filename, ex v1.45-2024-04-11-ror-data_schema_v2.json. In order to maintain compatibility with previous releases, v1 files have no version information in the filename, ex v1.45-2024-04-11-ror-data.json

For both versions, the CSV file contains a subset of fields from the JSON file, some of which have been flattened for easier parsing. As ROR records and the ROR schema are maintained in JSON, CSVs are for convenience only. JSON is the format of record.

Release versioning

Beginning with v1.45 in April 2024, ROR has introduced schema versioning, with files available in schema v1 and schema v2. The ROR API default version, however, remains v1 and will be changed to v2 in April 2025. To align with the API, the data dump major version will remain 1 until the API default version is changed to v2. At that time, the data dump major version will be incremented to 2 per below.

Data releases are versioned as follows:



Minor versions (ex 1.1, 1.2, 1.3):  Contain changes to data, such as a new records and updates to existing records. No changes to the data model/structure.

Patch versions (ex 1.0.1):  Used infrequently to correct errors in a release. No changes to the data model/structure.

Major versions (ex 1.x, 2.x, 3.x):  Contains changes to data model/structure, as well as the data itself. Major versions will be released with significant advance notice.


For convenience, the date is also include in the release file name, ex: v1.0-2022-03-15-ror-data.zip.

The ROR data dump is provided under the  Creative Commons CC0 Public Domain Dedication. Location data in ROR comes from GeoNames and is licensed under a Creative Commons Attribution 4.0 license.
DOI: 10.17632/6nth769dcv
title: Comparación en prematuros tratados con surfactante bovino y porcino. Revisión sistemática

description: Se recolectaron datos relacionados con el tipo de surfactante utilizado y la técnica de administración empleada INSURE: I: Intubation: Intubación. SU: Surfactant administration: Administración de surfactante RE: Rapid Extubation: Extubación rápida. LISA: L: Less I: Invasive S: Surfactant A: Administration: Administración de surfactante menos invasiva. SALSA: S: Surfactant A: Administration Through L: Laryngeal of S: Supraglottic A: Airway. administración de surfactante a través de la vía aérea supraglótica laríngea (INSURE, LISA, SALSA o convencional), así como diversas complicaciones clínicas asociadas: respiratorias, cardiovasculares, neurológicas y gastrointestinales. También se incluyeron desenlaces como mortalidad y necesidad de ventilación mecánica. Para el análisis de estos datos, se calcularon medidas de asociación, específicamente el Riesgo Relativo (RR) para comparar la probabilidad de complicaciones entre distintos grupos y el Odds Ratio (OR) para estudios tipo caso-control o situaciones con baja incidencia. Las herramientas utilizadas para el análisis estadístico incluyeron tablas de contingencia y representaciones gráficas elaboradas en Scimago Graphica y RevMan 5. Asimismo, se evaluó el riesgo de sesgo por dominio utilizando RevMan.
Esta revisión sistemática y metaanálisis, si bien no implica la intervención directa con seres humanos ni el uso de datos primarios, se ha desarrollado bajo estrictos principios éticos. Se promueve la beneficencia mediante la generación de conocimiento útil para la comunidad científica y clínica; se garantiza la no maleficencia evitando manipulaciones indebidas o plagio; se respeta la justicia atribuyendo correctamente las fuentes; y se valora la autonomía respetando los hallazgos originales. Aunque no se requiere la aprobación de un comité de ética para este tipo de estudio, se siguen los lineamientos establecidos en la Declaración de Helsinki y las directrices CIOMS, asegurando transparencia, integridad científica y respeto a los derechos de autor. Además, se priorizan investigaciones originales que cuenten con aprobación ética, reafirmando el compromiso con una investigación responsable y honesta.

De los estudios incluidos, se evidenció que el uso de surfactante porcino se asocia con:
Reducción significativa de hemorragia pulmonar (RR: 0.33; IC 95%: 0,12 - 0.86).
Menor incidencia de neumotórax (RR: 0.35–0,58).
Disminución en la necesidad de ventilación mecánica (RR: 0.50; p &lt; 0.001).
Reducción del ductus arterioso persistente (RR: 0.46; p = 0.018).
DOI: 10.22002/s3yfc-zp064
title: E. coli pED208_6um

description: Raw data files of E. coli pED208_6um
description: <strong>Tilt Series Date:</strong> 2015-01-17</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Purification / Growth Conditions / Treatment:</strong> cells were grown in LB o/n</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-11/rawdata/</p>ped208_6um0007.mrc,  Tilt Series (Pixel Size 0.5 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-11/rawdata/ped208_6um0007.mrc"
        > <i class="download icon"></i> Download </a></p>

        ped208_6um0007_part121_60.rec,  Reconstruction (Pixel Size 2.0 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-11/3dimage_50884/ped208_6um0007_part121_60.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.17632/6nth769dcv.1
title: Comparación en prematuros tratados con surfactante bovino y porcino. Revisión sistemática

description: Se recolectaron datos relacionados con el tipo de surfactante utilizado y la técnica de administración empleada INSURE: I: Intubation: Intubación. SU: Surfactant administration: Administración de surfactante RE: Rapid Extubation: Extubación rápida. LISA: L: Less I: Invasive S: Surfactant A: Administration: Administración de surfactante menos invasiva. SALSA: S: Surfactant A: Administration Through L: Laryngeal of S: Supraglottic A: Airway. administración de surfactante a través de la vía aérea supraglótica laríngea (INSURE, LISA, SALSA o convencional), así como diversas complicaciones clínicas asociadas: respiratorias, cardiovasculares, neurológicas y gastrointestinales. También se incluyeron desenlaces como mortalidad y necesidad de ventilación mecánica. Para el análisis de estos datos, se calcularon medidas de asociación, específicamente el Riesgo Relativo (RR) para comparar la probabilidad de complicaciones entre distintos grupos y el Odds Ratio (OR) para estudios tipo caso-control o situaciones con baja incidencia. Las herramientas utilizadas para el análisis estadístico incluyeron tablas de contingencia y representaciones gráficas elaboradas en Scimago Graphica y RevMan 5. Asimismo, se evaluó el riesgo de sesgo por dominio utilizando RevMan.
Esta revisión sistemática y metaanálisis, si bien no implica la intervención directa con seres humanos ni el uso de datos primarios, se ha desarrollado bajo estrictos principios éticos. Se promueve la beneficencia mediante la generación de conocimiento útil para la comunidad científica y clínica; se garantiza la no maleficencia evitando manipulaciones indebidas o plagio; se respeta la justicia atribuyendo correctamente las fuentes; y se valora la autonomía respetando los hallazgos originales. Aunque no se requiere la aprobación de un comité de ética para este tipo de estudio, se siguen los lineamientos establecidos en la Declaración de Helsinki y las directrices CIOMS, asegurando transparencia, integridad científica y respeto a los derechos de autor. Además, se priorizan investigaciones originales que cuenten con aprobación ética, reafirmando el compromiso con una investigación responsable y honesta.

De los estudios incluidos, se evidenció que el uso de surfactante porcino se asocia con:
Reducción significativa de hemorragia pulmonar (RR: 0.33; IC 95%: 0,12 - 0.86).
Menor incidencia de neumotórax (RR: 0.35–0,58).
Disminución en la necesidad de ventilación mecánica (RR: 0.50; p &lt; 0.001).
Reducción del ductus arterioso persistente (RR: 0.46; p = 0.018).
DOI: 10.22002/f5927-y2q29
title: P. aeruginosa T6SS minicell

description: Pseudomonas JT1599Grid box YWC247
description: <strong>Tilt Series Date:</strong> 2017-04-14</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Pseudomonas aeruginosa</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain from Jonida Toska at John Mekalanos lab</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-72/rawdata/</p>20170414_YWC247_10081.mrc,  Tilt Series (Pixel Size 0.39 nm), 2.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-72/rawdata/20170414_YWC247_10081.mrc"
        > <i class="download icon"></i> Download </a></p>

        20170414_YWC247_10081_part81_3.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.z6zj5m
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tribulus terrestris",
 "Country is Viet Nam",
 "HasCoordinate is true"
 ]
}

 The dataset includes 6 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046903-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xybp64
title: Occurrence Download

description: A dataset listing the 18 species recorded in GBIF matching the query:
{
 "and" : [
 "CollectionKey is 4f5a135c-ce74-41ca-b401-7470f3a2bb54",
 "TaxonKey is one of (Diptera)"
 ]
}

 The dataset's 18 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046879-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/59zt6xr999
title: Gender based Prediction Equation to assess Aerobic Capacity in Chronic Obstructive Pulmonary Disease patients with Infection

description: This study investigates the prognostic role of functional assessment in chronic obstructive pulmonary disease (COPD) patients with infection, emphasizing the six-minute walk test (6MWT) as a practical substitute for cardiopulmonary exercise testing (CPET). The 6MWT is simple, inexpensive, and safer for patients unable to perform CPET, making it valuable in low-resource settings. While reduced six-minute walk distance (6MWD) is linked with COPD severity, its role in predicting infection-related exacerbations remains underexplored.

COPD is a progressive, irreversible disease marked by airflow limitation and frequent infections. It causes reduced lung function, exercise intolerance, and poor quality of life. Smoking is the main cause, though pollution, occupational exposures, and genetics also contribute. Exacerbations worsen prognosis and strain healthcare systems, especially where diagnostic tools are limited.

In this study, 80 clinically stable patients with infection-related exacerbations were evaluated using spirometry and the 6MWT. Peak oxygen uptake (VO₂ max) was estimated from walking distance. Demographic variables, body mass index, and symptom burden (mMRC and Borg scales) were recorded. Data were analyzed with non-parametric statistics and regression models.

The cohort was mostly middle-aged, with severe airflow limitation and a slight male predominance. Emphysema was the most common phenotype. The 6MWT revealed clear exertional limitation, with Borg scores indicating breathlessness. Walking distance strongly correlated with VO₂ max (r² &gt; 0.95) and FEV₁/FVC (r = 0.731, p &lt; 0.001). Gender explained most variance in VO₂ max, reflecting physiological differences in lung function and muscle mass. Both low and high BMI negatively affected performance, suggesting a U-shaped link between body composition and exercise capacity.

Clinically, results emphasize the complementary role of functional testing with spirometry. The 6MWT is reproducible, requires minimal infrastructure, and is ideal where CPET is unavailable. Gender-specific predictive equations developed in this study support individualized rehabilitation and safer exercise prescriptions. Embedding such models into digital platforms could extend monitoring to community and home care.

In conclusion, integrating 6MWT with spirometry provides a reliable, field-friendly approach for predicting aerobic capacity and managing infection-related exacerbations in COPD. This combined strategy supports personalized care, especially in resource-limited settings, and has potential to improve patient outcomes while reducing disease burden.