cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15472/ortlqa
title: Macroinvertebrados acuáticos asociados a la red vial secundaria en Medellín

description: En el convenio entre CIPAV y el Departamento de Antioquia en el marco de este proyecto, se buscó evaluar la estabilidad del terreno, la protección del suelo y la estructura de la vegetación en dos taludes piloto instalados en dos sitios afectados por derrumbes con severidad y complejidad de media a alta y de media a baja, en vías del departamento de Antioquia. Ambos sitios se intervinieron mediante la construcción de estructuras biomecánicas y la siembra de plantas nativas en alta densidad, con generación de empleo y capacitación local. Después de terminadas las obras, se instalaron medidores de erosión con el fin de estimar la tasa de pérdida de suelo en los sitios restaurados y en dos taludes no restaurados con características similares. Se evaluaron también los cambios en la protección del suelo (cubrimiento por plantas y hojarasca que amortiguan el impacto de las gotas de lluvia) y la intercepción de la lluvia por las plantas. Se llevó a cabo un análisis comparativo de costos: efectividad en los taludes restaurados y dos taludes similares, intervenidos con obras civiles.
description: El objetivo relacionado con las colectas de macroinverbrados fue generar la línea base en el conocimiento de la calidad de agua mediante la valoración de parámetros fisicoquímicos, bacteriológicos y la comunidades de macroinvertebrados acuáticos en cuatro cuerpos de agua ubicado en predios con procesos de regeneración natural asistida, para tener un estándar de comparación después de llevar a cabo acciones de conservación en el área de captación de las mismas.
description: Los muestreos fueron realizados en un evento, en los cuales se colectaron 7223 macroinvertebrados correspondiente a 50 géneros en 49 familias, 15 ordenes, seis clases y cuatro phylum.
DOI: 10.15472/hyrgzx
title: Biodiversidad de ecosistemas estratégicos Más Bosques - Hongos

description: El proyecto “Biodiversidad encaminado al monitoreo en los ecosistemas estratégicos del municipio de Medellín, en el marco del proyecto Más Bosques para Medellín” se propuso explorar el potencial fúngico presente en los fragmentos boscosos y seminaturales del valle de Aburrá, constituyendo así un importante aporte al estudio de macrohongos, que se han encontrado principalmente en los fragmentos de bosque de roble del oriente del municipio de Medellín, con un par de reportes de macrohongos para el cerro el volador y ningún estudio micológico en la reserva forestal Astilleros ubicada en el corregimiento de San Antonio de Prado, siendo esto, un motivo adicional, de peso, que estimula la promoción de áreas protegidas en la zona, a fin de permitir la conservación de estos importantes organismos a la vez que todos los que se asocian con estos. El inventario de macrohongos realizados en el Cerro El Volador y en la reserva forestal Astilleros (corregimiento de San Antonio de Prado), servirá como base para tomar decisiones al momento de establecer áreas protegidas en el municipio, que favorezcan la conservación de los bosques y toda la la biodiversidad que en estos habita. El objetivo principal fue establecer la línea de base de macrohongos en dos cerros tutelares de Medellín.
description: En total se recolectaron 141 individuos en los dos sitios de estudio (Cerro el Volador y Astilleros). Dichas colecciones hacen parte de las divisiones Ascomycota y Basidiomycota (reino Fungi). Del total de individuos, 119 fueron identificadas, 92 hasta el nivel de especie y los 27 restantes representan morfoespecies ubicadas en el rango de género o en rangos taxonómicos superiores. La división con el mayor número de especies fue Basidiomycota, con 101 especies y en Ascomycota se reconocieron 18 especies. Respecto al número de especies en cada sitio, la reserva forestal Astilleros presentó el mayor número de especies e individuos recolectados (90 y 103 respectivamente) frente a las 29 especies y 38 individuos recolectados, que se encontraron en el cerro El Volador.
DOI: 10.15472/qdcg2w
title: Biodiversidad en ecosistemas estratégicos Más Bosques - Hormigas

description: Los procesos de reforestación a largo plazo requieren monitoreos que permitan evaluar la efectividad del proceso en términos de la restitución del ecosistema y sus funciones. Para esto, se utilizan especies que tienen rangos estrechos de tolerancia a la variación de factores ambientales (Arcila y Lozano-Zambrano 2003). Aunque se han utilizado principalmente vertebrados, Angiospermas y unos pocos grupos de invertebrados, ninguno de estos sirve como una aproximación para todos los demás, siendo necesaria la inclusión de un mayor número de grupos en este tipo de estudios (Wilson 2000).
description: Las hormigas (Hymenoptera: Formicidae) son consideradas buenas indicadoras de los cambios en los ecosistemas por diferentes razones: i) son un grupo común (lo que tal vez se debe a su socialidad; Wilson 2000, Fernández 2003); ii) son fácilmente colectadas; iii) presentan una gran diversidad; iv) son abundantes en muchos tipos de ecosistemas; v) responden rápidamente a los cambios ambientales; vi) tienen una gran variedad de funciones dentro de los ecosistemas; vii) es posible clasificarlas en grupos funcionales y relacionarlas con otros componentes bióticos del área; y viii) están bien definidas taxonómicamente (Alonso y Agosti 2000, Wilson 2000, Arcila y Lozano-Zambrano 2003).
description: Durante el 2011, se realizó la primera línea de base de hormigas en el marco de los proyectos de Más Bosques para Medellín; ahora, ocho años más tarde, se pretende evaluar los cambios en la composición de las hormigas para algunos de los predios muestreados, como un indicador del cambio en los ecosistemas. De otro lado, se construyen nuevamente líneas de base de hormigas, que permitan evaluar los cambios en el tiempo y observar la recuperación del ecosistema de las zonas de Regeneración Natural Asistida (RNA), para otros de los predios del municipio que han sido intervenidos. Para esto, se realizó un estudio de la diversidad de hormigas en estas áreas y en bosques de referencia aledaños.
DOI: 10.15472/dpuwry
title: Registros de hongos fitopatógenos y hongos no patogénicos aislados de Tomate en Colombia

description: Este recurso contiene hongos fitopatógenos y hongos no patogénicos aislados de raíz y tallo de plantas de Tomate, procedentes de cultivos comerciales en los departamentos de Antioquia, Boyacá, Cundinamarca, Caldas, La Guajira y Nariño. La mayoría de los datos pertenecen a hongos del género Fusarium spp., con algunas muestras adicionales de las familias Hypocreaceae, Peronosporaceae, Plectosphaerellaceae.
DOI: 10.34740/kaggle/dsv/7720947
title: coronavirus_2_isolate_Wuhan-Hu-1_complete_genome
DOI: 10.21227/yeje-mv27
title: IEEEXtreme 12: Organizational Chart

description: This dataset contains a total of 1985 submissions, with 2% correct solutions and 13% partial solutions. Link to the original challenge: https://csacademy.com/ieeextreme-practice/task/organizational-chart/ See the included PDF document for details about the original challenge.
DOI: 10.5281/zenodo.10723473
title: NFFA-Europe|Pilot proporsal "Operando XAS Study of Soft Landed Cu-based nanocrystal films in Electrolytic Solutions" PID 472
DOI: 10.5281/zenodo.10723474
title: NFFA-Europe|Pilot proporsal "Operando XAS Study of Soft Landed Cu-based nanocrystal films in Electrolytic Solutions" PID 472
DOI: 10.5281/zenodo.10639533
title: Smith_ISL_NMF_V1.0.0

description: This is an dataset of Irish Sign Language (ISL) Non-Manual Feature data.

# Cite: 

Robert G. Smith, (2023). Exploiting Association Rules Mining to Inform the Use of Non-Manual Features in Sign Language Processing. PhD Dissertation. Technological University Dublin. Dublin, Ireland.

Robert G. Smith. (2024). TUD-RSmith/PhD-Appendices: First release - Smith_NMF Dataset V1.0.0 (Smith_NMF_v1.0.0). Zenodo. https://doi.org/10.5281/zenodo.10639554

[![DOI](https://zenodo.org/badge/560578153.svg)](https://zenodo.org/doi/10.5281/zenodo.10639533)

## AboutThis dataset was published in the appendix of a PhD Dissertation by Robert G. Smith robert.smith@tudublin.ie

Cite: Robert G. Smith, Exploiting Association Rules Mining to Inform the Use of Non-Manual Features in Sign Language Processing, PhD Dissertation, Technological University Dublin, Ireland, 2023.

The dataset is comprised of several smaller datasets: ### Appendix C [Appendix C](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixC-most_frequent_lexical_items_in_the_SOI_corpus)lexical frequency list (see: Smith, R. G. & Hofmann, M., (2020). A Lexical Frequency Analysis of Irish Sign Language. TEANGA, the Journal of the Irish Association for Applied Linguistics, 11, 18–47. https://doi.org/10.35903/teanga.v11i1.162)

### Appendix D[Appendix D](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixD-all_association_rules)Association rules. This was the main output of the PhD work. See the dissertation for method. (this dir includes filtered and unfiltered data)

### Appendix E[Appendix E](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixE-Datasets)Datasets used to generate association rules 

### Appendix F[Appendix F](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixF-Source_code)Source code (R) used to generate rules listed in Appendix D 

### Appendix G[Appendix G](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixG-integrity_test)Source code (R) used for integrity testing
DOI: 10.5281/zenodo.10639554
title: Smith_ISL_NMF_V1.0.0

description: This is an dataset of Irish Sign Language (ISL) Non-Manual Feature data.

# Cite: 

Robert G. Smith, (2023). Exploiting Association Rules Mining to Inform the Use of Non-Manual Features in Sign Language Processing. PhD Dissertation. Technological University Dublin. Dublin, Ireland.

Robert G. Smith. (2024). TUD-RSmith/PhD-Appendices: First release - Smith_NMF Dataset V1.0.0 (Smith_NMF_v1.0.0). Zenodo. https://doi.org/10.5281/zenodo.10639554

[![DOI](https://zenodo.org/badge/560578153.svg)](https://zenodo.org/doi/10.5281/zenodo.10639533)

## AboutThis dataset was published in the appendix of a PhD Dissertation by Robert G. Smith robert.smith@tudublin.ie

Cite: Robert G. Smith, Exploiting Association Rules Mining to Inform the Use of Non-Manual Features in Sign Language Processing, PhD Dissertation, Technological University Dublin, Ireland, 2023.

The dataset is comprised of several smaller datasets: ### Appendix C [Appendix C](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixC-most_frequent_lexical_items_in_the_SOI_corpus)lexical frequency list (see: Smith, R. G. & Hofmann, M., (2020). A Lexical Frequency Analysis of Irish Sign Language. TEANGA, the Journal of the Irish Association for Applied Linguistics, 11, 18–47. https://doi.org/10.35903/teanga.v11i1.162)

### Appendix D[Appendix D](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixD-all_association_rules)Association rules. This was the main output of the PhD work. See the dissertation for method. (this dir includes filtered and unfiltered data)

### Appendix E[Appendix E](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixE-Datasets)Datasets used to generate association rules 

### Appendix F[Appendix F](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixF-Source_code)Source code (R) used to generate rules listed in Appendix D 

### Appendix G[Appendix G](https://github.com/TUD-RSmith/PhD-Appendices/tree/main/AppendixG-integrity_test)Source code (R) used for integrity testing
DOI: 10.6084/m9.figshare.8319806
title: Topology-dependent, bifurcated mitochondrial quality control under starvation

description: Selective elimination of mitochondria by autophagy is a critical strategy for a variety of physiological processes, including development, cell-fate determination and stress response. Although several mechanisms have been identified as responsible for selective degradation of mitochondria, such as the PINK1-PRKN/PARKIN- and receptor-dependent pathways, aspects of the mechanisms and particularly the principles underlying the selection process of mitochondria remain obscure. Here, we addressed a new selection strategy in which the selective elimination of mitochondria is dependent on organellar topology. We found that populations of mitochondria undergo different topological transformations under serum starvation, either swelling or forming donut shapes. Swollen mitochondria are associated with mitochondrial membrane potential dissipation and PRKN recruitment, which promote their selective elimination, while the donut topology maintains mitochondrial membrane potential and helps mitochondria resist autophagy. Mechanistic studies show that donuts resist autophagy even after depolarization through preventing recruitment of autophagosome receptors CALCOCO2/NDP52 and OPTN even after PRKN recruitment. Our results demonstrate topology-dependent, bifurcated mitochondrial recycling under starvation, that is swollen mitochondria undergo removal by autophagy, while donut mitochondria undergo fission and fusion cycles for reintegration. This study reveals a novel morphological selection for control of mitochondrial quality and quantity under starvation.
DOI: 10.6084/m9.figshare.8319806.v1
title: Topology-dependent, bifurcated mitochondrial quality control under starvation

description: Selective elimination of mitochondria by autophagy is a critical strategy for a variety of physiological processes, including development, cell-fate determination and stress response. Although several mechanisms have been identified as responsible for selective degradation of mitochondria, such as the PINK1-PRKN/PARKIN- and receptor-dependent pathways, aspects of the mechanisms and particularly the principles underlying the selection process of mitochondria remain obscure. Here, we addressed a new selection strategy in which the selective elimination of mitochondria is dependent on organellar topology. We found that populations of mitochondria undergo different topological transformations under serum starvation, either swelling or forming donut shapes. Swollen mitochondria are associated with mitochondrial membrane potential dissipation and PRKN recruitment, which promote their selective elimination, while the donut topology maintains mitochondrial membrane potential and helps mitochondria resist autophagy. Mechanistic studies show that donuts resist autophagy even after depolarization through preventing recruitment of autophagosome receptors CALCOCO2/NDP52 and OPTN even after PRKN recruitment. Our results demonstrate topology-dependent, bifurcated mitochondrial recycling under starvation, that is swollen mitochondria undergo removal by autophagy, while donut mitochondria undergo fission and fusion cycles for reintegration. This study reveals a novel morphological selection for control of mitochondrial quality and quantity under starvation.
DOI: 10.6084/m9.figshare.15135602
title: DTYMK promote hepatocellular carcinoma proliferation by regulating cell cycle

description: Overexpression of DTYMK is related with tumorigenesis and progression in several human tumors. However, the role of upregulated DTYMK in hepatocellular carcinoma (HCC) patients still remains unclear. In this study, the DTYMK expression in HCC tumors was evaluated in three GEO series (GSE14520, GSE54236, GSE63898), TCGA-LIHC, and ICGC-IRLR-JP cohorts. Survival analysis of DTYMK based on TCGA-LIHC and ICGC-LIRI-JP cohorts was conducted. We found that DTYMK was dramatically upregulated in tumor tissue compared with that in adjacent liver tissue. Kaplan-Meier analysis revealed that high expression of DTYMK in HCC patients’ tumor tissue was significantly corresponded to worse overall survival (OS) (P &lt; 0.05). Further analysis showed that overexpressing DTYMK led to poor relapse free survival (RFS) and disease-specific survival (DSS) (all P &lt; 0.05). In conclusion, DTYMK is upregulated in tumors and correlated with poor prognosis in HCC patients. In our report, DTYMK is higher expression in HCC cancer tissue and cell line than tumor adjacent tissue and normal liver cell line. Knocking down DTYMK can inhabit tumor cell proliferation by interfering cell cycle, whereas overexpression of DTYMK can promote tumor cell proliferation. These findings indicate that upregulation of DTYMK enhances tumor growth and proliferation by promoting cell cycle.
DOI: 10.6084/m9.figshare.15135602.v1
title: DTYMK promote hepatocellular carcinoma proliferation by regulating cell cycle

description: Overexpression of DTYMK is related with tumorigenesis and progression in several human tumors. However, the role of upregulated DTYMK in hepatocellular carcinoma (HCC) patients still remains unclear. In this study, the DTYMK expression in HCC tumors was evaluated in three GEO series (GSE14520, GSE54236, GSE63898), TCGA-LIHC, and ICGC-IRLR-JP cohorts. Survival analysis of DTYMK based on TCGA-LIHC and ICGC-LIRI-JP cohorts was conducted. We found that DTYMK was dramatically upregulated in tumor tissue compared with that in adjacent liver tissue. Kaplan-Meier analysis revealed that high expression of DTYMK in HCC patients’ tumor tissue was significantly corresponded to worse overall survival (OS) (P &lt; 0.05). Further analysis showed that overexpressing DTYMK led to poor relapse free survival (RFS) and disease-specific survival (DSS) (all P &lt; 0.05). In conclusion, DTYMK is upregulated in tumors and correlated with poor prognosis in HCC patients. In our report, DTYMK is higher expression in HCC cancer tissue and cell line than tumor adjacent tissue and normal liver cell line. Knocking down DTYMK can inhabit tumor cell proliferation by interfering cell cycle, whereas overexpression of DTYMK can promote tumor cell proliferation. These findings indicate that upregulation of DTYMK enhances tumor growth and proliferation by promoting cell cycle.
DOI: 10.6084/m9.figshare.12280547.v3
title: BeeWalk dataset 2008-22

description: DESCRIPTIONFocussed on bees in the genus Bombus (bumblebees) and Apis (honeybees), with occasional records of other bee species. No particular intentional bias in habitats surveyed.GEOGRAPHIC DESCRIPTIONThe BeeWalk survey covers Great Britain (but not Northern Ireland). Recording effort is biased towards Somerset, South Wales and the Scottish central belt as a result of publicity pushes, but East Anglia, Cornwall, north/mid Wales and north-west Scotland are somewhat under-represented in the dataset. Records within this dataset are generally collected at 100m resolution.PURPOSERecords were collected with the aim of better understanding the abundance and distribution of British bumblebee species, and creating an index of abundance in the same way as has been done for butterflies with the UKBMS dataset.DATA QUALITYData are collected by volunteers whose identification abilities will vary. Frequent bumblebee ID training courses are provided for volunteers, identification resources are provided on the project website, and the category 'indeterminate bumblebee' is provided as a catch-all for bees where the identification is uncertain. Trials carried out as part of the NPPMF project have found that volunteer's error rate using the BeeWalk methodology is not significantly different to that of an expert. Photographs and/or specimens are not required for each sighting, but unusual sightings (rare or difficult-to-identify species) are checked by referral to the recorder unless they are known to be experts. The dataset has been validated and verified using the NBN Record Cleaner, and as a consequence some erroneous grid references have been corrected and records outside their range have been checked and confirmed by an expert after referral to the original recorder, or downgraded to 'indeterminate bumblebee' where no evidence could be provided. The cryptic Bombus lucorum complex are treated as B. lucorum sensu lato, and only queens and males of B. terrestris & B. lucorum (sl) are recorded to species (indistinguishable workers are treated as the aggregate species terrestris/lucorum).METHODSVolunteers walk a set transect on a monthly basis between March and October (inclusive), recording all bumblebees seen within a 4m x 4m 2m 'recording box' in front of the recorder (see www.beewalk.org.uk for full details). Photographs are not submitted in support of all records, but netting and photographing bumblebees to help ID is encouraged. BBCT also run a series of ID training events aimed at BeeWalkers to upskill volunteers. Records submitted are validated and their distribution verified using the NBN Record Cleaner with verification rules from the Bees, Wasps and Ants Recording Society. Records which fail verification or validation checks are referred back to recorders for further evidence.
DOI: 10.5281/zenodo.10085086
title: Characterization of monosubstituted benzene_BENZENE
DOI: 10.5281/zenodo.10085087
title: Characterization of monosubstituted benzene_BENZENE
DOI: 10.5281/zenodo.10498602
title: Supplemental Material

description: Supplemental material for the manuscript submission to the Journal of Clinical Endocrinology & Metabolism
DOI: 10.5281/zenodo.10498601
title: Supplemental Material

description: Supplemental material for the manuscript submission to the Journal of Clinical Endocrinology & Metabolism
DOI: 10.5281/zenodo.10723516
title: Supplemental Material

description: Supplemental material for the manuscript submission to the Journal of Clinical Endocrinology & Metabolism
DOI: 10.6069/f8by-wc38
title: PRM quantification of interferon-induced proteins upon Type I IFN-beta, Type II IFN-gamma, and LPS stimulation of differentiated THP-1 cells

description: The cornerstone of mammalian intrinsic and innate immune defense against pathogens is the production of interferons (IFN), cytokines that stimulate anti-pathogen signaling pathways through the simultaneous expression of hundreds of interferon-stimulated genes (ISG). In this work, we sought to compare the effects of IFN classes on the cellular proteome. Upon classifying sets of both shared and distinct ISG proteins responsive to each IFN class, we determined the relative protein alterations using parallel reaction monitoring (PRM) by developing a proteotypic peptide library for ISG markers induced by each IFN class. Additional comparison to stimulation with pro-inflammatory LPS helped to contextualize the observed IFN signatures.