cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14433212
title: Additional file 5 of Systemic paralogy and function of retinal determination network homologs in arachnids

description: Additional file 5. Dataset S2: Dataset for the differential gene expression analyses. DESeq2 dataset (DESeq (dds); filtered for padj &gt; 0.5) of the DGE analysis of Comparison 1, 2.1 and 2.2 (see “Material and Methods” for explanation). run_ddseq2.r: custom R script used to run all three analysis. (.zip). Available at: https://datadryad.org/stash/share/xb2VW4o80AmId3mLFZB07Ho7rHxPx-htK9q5J_-2miM ; doi: https://doi.org/10.5061/dryad.xgxd254d1
DOI: 10.6084/m9.figshare.14433215.v1
title: Additional file 6 of Systemic paralogy and function of retinal determination network homologs in arachnids

description: Additional file 6. Dataset S3: Dataset for the GOseq enrichment analyses. This folder contains the complete GOseq results of enriched/depleted (FDR ≤ 0.05) GO terms of up- (Log2FC &gt; 1) and down-regulated (Log2FC
DOI: 10.6084/m9.figshare.14433224
title: Additional file of Acute portal vein thrombosis secondary to COVID-19: a case report

description: Additional file of Acute portal vein thrombosis secondary to COVID-19: a case report
DOI: 10.6084/m9.figshare.14433224.v1
title: Additional file of Acute portal vein thrombosis secondary to COVID-19: a case report

description: Additional file of Acute portal vein thrombosis secondary to COVID-19: a case report
DOI: 10.6084/m9.figshare.14433233
title: Additional file of Predictors of short-term thrombocytopenia after transcatheter aortic valve implantation: a retrospective study at a single Japanese center

description: Additional file of Predictors of short-term thrombocytopenia after transcatheter aortic valve implantation: a retrospective study at a single Japanese center
DOI: 10.6084/m9.figshare.14433233.v1
title: Additional file of Predictors of short-term thrombocytopenia after transcatheter aortic valve implantation: a retrospective study at a single Japanese center

description: Additional file of Predictors of short-term thrombocytopenia after transcatheter aortic valve implantation: a retrospective study at a single Japanese center
DOI: 10.6084/m9.figshare.14433245
title: Additional file of Results from a pre-post, uncontrolled pilot study of a mindfulness-based program for early elementary school teachers

description: Additional file of Results from a pre-post, uncontrolled pilot study of a mindfulness-based program for early elementary school teachers
DOI: 10.6084/m9.figshare.14433245.v1
title: Additional file of Results from a pre-post, uncontrolled pilot study of a mindfulness-based program for early elementary school teachers

description: Additional file of Results from a pre-post, uncontrolled pilot study of a mindfulness-based program for early elementary school teachers
DOI: 10.6084/m9.figshare.14433266.v1
title: Additional file of Dietary assessment and patient-perspective reasons for poor adherence to diet and exercise post bariatric surgery

description: Additional file of Dietary assessment and patient-perspective reasons for poor adherence to diet and exercise post bariatric surgery
DOI: 10.6084/m9.figshare.14433263.v1
title: Additional file 1 of Dietary assessment and patient-perspective reasons for poor adherence to diet and exercise post bariatric surgery

description: Additional file 1: Table S1. Association between participant characteristics, BMI, and health benefit score.
DOI: 10.6084/m9.figshare.14433263
title: Additional file 1 of Dietary assessment and patient-perspective reasons for poor adherence to diet and exercise post bariatric surgery

description: Additional file 1: Table S1. Association between participant characteristics, BMI, and health benefit score.
DOI: 10.6084/m9.figshare.14433275
title: Additional file 2 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 2: Supplementary Table S1 - Biotype counts of different RNA species identified by RNA-sequencing of plasma EV small RNAs from HIV-positive and HIV-negative subjects in the test cohort.
DOI: 10.6084/m9.figshare.14433278
title: Additional file 3 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 3: Supplementary Table S2 - Read counts (normalized RPM) of all mapped mature plasma EV miRNAs in the test cohort.
DOI: 10.6084/m9.figshare.14433278.v1
title: Additional file 3 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 3: Supplementary Table S2 - Read counts (normalized RPM) of all mapped mature plasma EV miRNAs in the test cohort.
DOI: 10.6084/m9.figshare.14433281
title: Additional file 4 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 4: Supplementary Table S3 - Differential expression analysis of top 70 protein coding reads showing fold change between HIV-positive (n = 8) versus HIV-negative (n = 12) subjects in the test cohort. 70 genes were selected from a total of 14,500 genes by filtering for protein coding sequences with counts &gt; 10 in at least 25% samples, and not identified in a blank sample from an independent experiment.
DOI: 10.6084/m9.figshare.14433284.v1
title: Additional file 5 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 5: Supplementary Table S4 - Over-representation analysis of differentially expressed plasma EV-miRNAs in the validation cohort using miEAA (miRNA Enrichment Analysis and Annotation) tool.
DOI: 10.6084/m9.figshare.14433281.v1
title: Additional file 4 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 4: Supplementary Table S3 - Differential expression analysis of top 70 protein coding reads showing fold change between HIV-positive (n = 8) versus HIV-negative (n = 12) subjects in the test cohort. 70 genes were selected from a total of 14,500 genes by filtering for protein coding sequences with counts &gt; 10 in at least 25% samples, and not identified in a blank sample from an independent experiment.
DOI: 10.6084/m9.figshare.14433284
title: Additional file 5 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 5: Supplementary Table S4 - Over-representation analysis of differentially expressed plasma EV-miRNAs in the validation cohort using miEAA (miRNA Enrichment Analysis and Annotation) tool.
DOI: 10.6084/m9.figshare.14433287.v1
title: Additional file 6 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 6: Supplementary Table S5 - Predicted and validated target genes of 6 differentially expressed plasma EV-miRNAs in the validation cohort. Shown are 61 target genes selected based on the rule: 1) present in both miRDIP and miRWalk predicted target lists; OR 2) present in either miRDIP or miRWalk predicted target lists and experimentally validated (miRTarbase).
DOI: 10.6084/m9.figshare.14433290
title: Additional file 7 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 7: Supplementary Table S6 - Enriched pathway terms of networks associated with 61 predicted and validated target genes of 6 miRNAs upregulated in the validation cohort using ClueGo software (.xlsx)
DOI: 10.6084/m9.figshare.14433290.v1
title: Additional file 7 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 7: Supplementary Table S6 - Enriched pathway terms of networks associated with 61 predicted and validated target genes of 6 miRNAs upregulated in the validation cohort using ClueGo software (.xlsx)
DOI: 10.6084/m9.figshare.14433275.v1
title: Additional file 2 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 2: Supplementary Table S1 - Biotype counts of different RNA species identified by RNA-sequencing of plasma EV small RNAs from HIV-positive and HIV-negative subjects in the test cohort.
DOI: 10.6084/m9.figshare.14433293
title: Additional file 8 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 8: Supplementary Table S7 - Levels of plasma metabolites associated with oxidative stress, polyunsaturated fatty acid (PUFA), and tryptophan/kynurenine metabolism in HIV-negative (n = 8) and HIV-positive (n = 8) subjects in the validation cohort.
DOI: 10.6084/m9.figshare.14433293.v1
title: Additional file 8 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 8: Supplementary Table S7 - Levels of plasma metabolites associated with oxidative stress, polyunsaturated fatty acid (PUFA), and tryptophan/kynurenine metabolism in HIV-negative (n = 8) and HIV-positive (n = 8) subjects in the validation cohort.
DOI: 10.6084/m9.figshare.14433287
title: Additional file 6 of Small RNA sequencing of extracellular vesicles identifies circulating miRNAs related to inflammation and oxidative stress in HIV patients

description: Additional file 6: Supplementary Table S5 - Predicted and validated target genes of 6 differentially expressed plasma EV-miRNAs in the validation cohort. Shown are 61 target genes selected based on the rule: 1) present in both miRDIP and miRWalk predicted target lists; OR 2) present in either miRDIP or miRWalk predicted target lists and experimentally validated (miRTarbase).
DOI: 10.6084/m9.figshare.14433308
title: Additional file 1 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 1: Figure S1. GCEC aa sequence. Amino acid sequence of C-terminal region of GCE (UniProtKB - Q9VXW7) encompassing 661–959 aa area.
DOI: 10.6084/m9.figshare.14433308.v1
title: Additional file 1 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 1: Figure S1. GCEC aa sequence. Amino acid sequence of C-terminal region of GCE (UniProtKB - Q9VXW7) encompassing 661–959 aa area.
DOI: 10.6084/m9.figshare.14433311
title: Additional file 2 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 2: Figure S2. GCEC purification. A) Preparative SEC performed on the Superdex 200 10/300 GL column. Fractions selected for SDS-PAGE are indicated by fraction numbers. Fractions containing purified GCEC are marked with the grey color. B) Commassie Brilliant Blue R 250-stained SDS-PAGE analysis of the GCEC samples. Lane 1, molecular mass standards; lane 2, refolded proteins; lane 3, proteins not bound to the Ni2+-NTA resin; lanes 4–5, fractions after elution; lane 6, aggregated GCEC protein; lanes 7–8, purified GCEC.
DOI: 10.6084/m9.figshare.14433314
title: Additional file 3 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 3: Figure S3. LBD FTZ-F1 purification. A) Preparative SEC performed on the Superdex 75 10/300 GL column. Fractions co’ntaining purified LBD FTZ-F1 protein are marked with the grey color. B) Commassie Brilliant Blue R 250-stained SDS-PAGE analysis of the LBD FTZ-F1 samples. Lane 1, the bacterial protein fraction; lane 2, the soluble protein fraction; lane 3, the fraction of proteins not bound to the Ni2+-NTA resin; lane 4, combined elution fractions; lane 5, LBD FTZ-F1 purified with SEC; lane 6, molecular mass standards.
DOI: 10.6084/m9.figshare.14433311.v1
title: Additional file 2 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 2: Figure S2. GCEC purification. A) Preparative SEC performed on the Superdex 200 10/300 GL column. Fractions selected for SDS-PAGE are indicated by fraction numbers. Fractions containing purified GCEC are marked with the grey color. B) Commassie Brilliant Blue R 250-stained SDS-PAGE analysis of the GCEC samples. Lane 1, molecular mass standards; lane 2, refolded proteins; lane 3, proteins not bound to the Ni2+-NTA resin; lanes 4–5, fractions after elution; lane 6, aggregated GCEC protein; lanes 7–8, purified GCEC.
DOI: 10.6084/m9.figshare.14433314.v1
title: Additional file 3 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 3: Figure S3. LBD FTZ-F1 purification. A) Preparative SEC performed on the Superdex 75 10/300 GL column. Fractions co’ntaining purified LBD FTZ-F1 protein are marked with the grey color. B) Commassie Brilliant Blue R 250-stained SDS-PAGE analysis of the LBD FTZ-F1 samples. Lane 1, the bacterial protein fraction; lane 2, the soluble protein fraction; lane 3, the fraction of proteins not bound to the Ni2+-NTA resin; lane 4, combined elution fractions; lane 5, LBD FTZ-F1 purified with SEC; lane 6, molecular mass standards.
DOI: 10.6084/m9.figshare.14433317
title: Additional file 4 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 4: Figure S4. The sequences of primers used in PCR. The primers used for LBD FTZ-F1 and GCEC cDNA amplification introduce restriction site sequences for the selected endonucleases (underlined in the primer sequences). The upper-case letters in the primer sequence represent the sequence present respectively in LBD FTZ-F1 or GCEC. The reverse primer for the GCEC introduced C-terminal FLAG protein sequence (DYKDDDDK, marked in blue).
DOI: 10.6084/m9.figshare.14433317.v1
title: Additional file 4 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 4: Figure S4. The sequences of primers used in PCR. The primers used for LBD FTZ-F1 and GCEC cDNA amplification introduce restriction site sequences for the selected endonucleases (underlined in the primer sequences). The upper-case letters in the primer sequence represent the sequence present respectively in LBD FTZ-F1 or GCEC. The reverse primer for the GCEC introduced C-terminal FLAG protein sequence (DYKDDDDK, marked in blue).
DOI: 10.6084/m9.figshare.14433320
title: Additional file 5 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 5: Figure S5. Subcellular localization of GCEC and FTZ-F1. The subcellular distribution of the YFP-GCEC-FLAG and YFP-LBD FTZ-F1 was analyzed 24 h after the transfection or co-transfection of the COS-7 cells. A) Representative images of the COS-7 cells expressing the YFP-GCEC-FLAG or CFP-LBD FTZ-F1 after single transfection. The YFP-GCEC-FLAG was observed in nuclei, while the CFP-LBD FTZ-F1 localized within the whole cell. B) Representative images of the COS-7 cells expressing the YFP-GCEC-FLAG and CFP-LBD FTZ-F1 after co-transfection. The YFP-GCEC-FLAG was still observed in the nuclei, while the CFP-LBD FTZ-F1 was shifted to a predominantly nuclear localization. C) Representative images of the YFP and CFP expression used as the control. Both proteins were observed within the whole cell.
DOI: 10.6084/m9.figshare.14433320.v1
title: Additional file 5 of The intrinsically disordered region of GCE protein adopts a more fixed structure by interacting with the LBD of the nuclear receptor FTZ-F1

description: Additional file 5: Figure S5. Subcellular localization of GCEC and FTZ-F1. The subcellular distribution of the YFP-GCEC-FLAG and YFP-LBD FTZ-F1 was analyzed 24 h after the transfection or co-transfection of the COS-7 cells. A) Representative images of the COS-7 cells expressing the YFP-GCEC-FLAG or CFP-LBD FTZ-F1 after single transfection. The YFP-GCEC-FLAG was observed in nuclei, while the CFP-LBD FTZ-F1 localized within the whole cell. B) Representative images of the COS-7 cells expressing the YFP-GCEC-FLAG and CFP-LBD FTZ-F1 after co-transfection. The YFP-GCEC-FLAG was still observed in the nuclei, while the CFP-LBD FTZ-F1 was shifted to a predominantly nuclear localization. C) Representative images of the YFP and CFP expression used as the control. Both proteins were observed within the whole cell.
DOI: 10.6084/m9.figshare.14433197.v1
title: 12h Glu regulation Day 4, 13.xlsx

description: Blood glucose measurments
DOI: 10.6084/m9.figshare.14433197
title: 12h Glu regulation Day 4, 13.xlsx

description: Blood glucose measurments
DOI: 10.5281/zenodo.4623738
title: Yangambi Key Landscape for Conservation Land Cover Change and Validation Datasets (2019)

description: The Yangambi land cover change dataset covers an area of 7276km<sup>2</sup> and mapped with both dichotomous (8 land cover classes) and modular (up to 32 land cover classes) levels based on FAO's Land Cover Classification System (LCCS). High-resolution optical satellite imagery were used to generate dense time-series data from which the thematic land cover change map was derived (2019). The map was fully verified and validated by an independent team to achieve the Copernicus Global Land Monitoring Programme's strict data quality requirements. An independent validation dataset was also collected and it is shared here. The validation dataset contains 2421 verified land cover points based on the [up to] 14 aggregated land cover change classes. Furthermore, two predefined symbology (QGIS legend files) for the land cover and validation datasets based on FAO's LCCS is also shared here to ease the visualization of them (Dichotomous and Modular levels). Further details regarding the sites selection, mapping and validation procedures are described in the corresponding publication: Szantoi, Zoltan; Brink, Andreas; Lupi, Andrea (2021): An update and beyond: key landscapes for conservation land cover and change monitoring, thematic and validation datasets for the African, Caribbean and Pacific region (in review, Earth System Science Data). Related dataset: https://doi.pangaea.de/10.1594/PANGAEA.920854 Data format: vector (shapefile, polygon - LC/LCC dataset), vector (shapefile, point - validation dataset),<br> Geographic Coordinate System (LC/LCC dataset): World Geodetic System 1984 (EPSG:4326) and its datum (EPSG:6326),<br> Minimum mapping unit: 3ha for land cover and 0.5ha for land cover change<br> Land cover/change dataset attributes:<br> [map_codeA] - dichotomous level,<br> [map_code} - modular level,<br> [class_name] - corresponding modular class name.<br> Validation dataset attributes (not all are present):<br> [plaus200X] - corresponding class for the change map (i.e. 2000), modular level<br> [plaus200Xr] - corresponding class for the change map (i.e. 2000), aggregated classes<br> [plaus20XX] - corresponding class for the land cover map (i.e. 2015), modular level<br> [plaus20XXr] - corresponding class for the land cover map (i.e. 2015), aggregated classes<br> The naming of all attributes follow the same structure in all shapefiles - see Table 2 Dichotomous and Modular thematic land cover/use classes and in the "3.5 Validation dataset production" section in the corresponding publication.
DOI: 10.5281/zenodo.4623737
title: Yangambi Key Landscape for Conservation Land Cover Change and Validation Datasets (2019)

description: The Yangambi land cover change dataset covers an area of 7276km<sup>2</sup> and mapped with both dichotomous (8 land cover classes) and modular (up to 32 land cover classes) levels based on FAO's Land Cover Classification System (LCCS). High-resolution optical satellite imagery were used to generate dense time-series data from which the thematic land cover change map was derived (2019). The map was fully verified and validated by an independent team to achieve the Copernicus Global Land Monitoring Programme's strict data quality requirements. An independent validation dataset was also collected and it is shared here. The validation dataset contains 2421 verified land cover points based on the [up to] 14 aggregated land cover change classes. Furthermore, two predefined symbology (QGIS legend files) for the land cover and validation datasets based on FAO's LCCS is also shared here to ease the visualization of them (Dichotomous and Modular levels). Further details regarding the sites selection, mapping and validation procedures are described in the corresponding publication: Szantoi, Zoltan; Brink, Andreas; Lupi, Andrea (2021): An update and beyond: key landscapes for conservation land cover and change monitoring, thematic and validation datasets for the African, Caribbean and Pacific region (in review, Earth System Science Data). Related dataset: https://doi.pangaea.de/10.1594/PANGAEA.920854 Data format: vector (shapefile, polygon - LC/LCC dataset), vector (shapefile, point - validation dataset),<br> Geographic Coordinate System (LC/LCC dataset): World Geodetic System 1984 (EPSG:4326) and its datum (EPSG:6326),<br> Minimum mapping unit: 3ha for land cover and 0.5ha for land cover change<br> Land cover/change dataset attributes:<br> [map_codeA] - dichotomous level,<br> [map_code} - modular level,<br> [class_name] - corresponding modular class name.<br> Validation dataset attributes (not all are present):<br> [plaus200X] - corresponding class for the change map (i.e. 2000), modular level<br> [plaus200Xr] - corresponding class for the change map (i.e. 2000), aggregated classes<br> [plaus20XX] - corresponding class for the land cover map (i.e. 2015), modular level<br> [plaus20XXr] - corresponding class for the land cover map (i.e. 2015), aggregated classes<br> The naming of all attributes follow the same structure in all shapefiles - see Table 2 Dichotomous and Modular thematic land cover/use classes and in the "3.5 Validation dataset production" section in the corresponding publication.