cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7686839
title: Additional file 1: of Exosomal miRNA profile as complementary tool in the diagnostic and prediction of treatment response in localized breast cancer under neoadjuvant chemotherapy

description: Figure S1. Exosome characterization by TEM and Western blot. TEM images of exosomes derived from BC cell lines demonstrated that our methodology was successful in isolating exosomes, observing double-membrane vesicles with a diameter of ~ 150 nm (A). Furthermore, Western blot characterization showed positive expression of Hsp70 and CD9 exosomal proteins in these exosomes but negative expression of GM-130, which was present in the MCF-7 lysate positive control (B). Figure S2. ROC Curve of MBC identification by EmiR-21 (Ext1). Gray line represents EmiR-21 (Ext1) values for sensibility and specificity while black dotted line represents random predictor baseline. Light gray area represents EmiR-21 (Ext1) area under the curve (AUC) = 0.777. Table S1. Univariate logistic binary regression for MBC identification. Abbreviations: CA19.9, Carbohydrate Antigen 19.9; CEA, Carcinoembryonic Antigen; Ext1, basal extraction; HR, Hazard Ratio. Table S2. Association between CTC presence and clinicopathological features. Abbreviations: CTCs, circulating tumor cells; Ext1, basal extraction; Ext2, extraction during neoadjuvant treatment; T, tumor size; N, lymph node status. (ZIP 352 kb)
DOI: 10.6084/m9.figshare.7686839.v1
title: Additional file 1: of Exosomal miRNA profile as complementary tool in the diagnostic and prediction of treatment response in localized breast cancer under neoadjuvant chemotherapy

description: Figure S1. Exosome characterization by TEM and Western blot. TEM images of exosomes derived from BC cell lines demonstrated that our methodology was successful in isolating exosomes, observing double-membrane vesicles with a diameter of ~ 150 nm (A). Furthermore, Western blot characterization showed positive expression of Hsp70 and CD9 exosomal proteins in these exosomes but negative expression of GM-130, which was present in the MCF-7 lysate positive control (B). Figure S2. ROC Curve of MBC identification by EmiR-21 (Ext1). Gray line represents EmiR-21 (Ext1) values for sensibility and specificity while black dotted line represents random predictor baseline. Light gray area represents EmiR-21 (Ext1) area under the curve (AUC) = 0.777. Table S1. Univariate logistic binary regression for MBC identification. Abbreviations: CA19.9, Carbohydrate Antigen 19.9; CEA, Carcinoembryonic Antigen; Ext1, basal extraction; HR, Hazard Ratio. Table S2. Association between CTC presence and clinicopathological features. Abbreviations: CTCs, circulating tumor cells; Ext1, basal extraction; Ext2, extraction during neoadjuvant treatment; T, tumor size; N, lymph node status. (ZIP 352 kb)
DOI: 10.7284/127357
title: Radiometer data collected during research cruise AT37-12 using a Eppley RAD instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686821
title: Additional file 8: of Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model

description: wLcla annotation. GenBank data file with the wLcla annotation described in this paper. (GBK 2292 kb)
DOI: 10.6084/m9.figshare.7686821.v1
title: Additional file 8: of Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model

description: wLcla annotation. GenBank data file with the wLcla annotation described in this paper. (GBK 2292 kb)
DOI: 10.7284/127374
title: Water Temperature data collected during research cruise AT37-12 using a Sea-Bird SBE-48 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686809
title: Additional file 7: of Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model

description: wFol annotation. GenBank data file with the wFol annotation described in this paper. (GBK 2967 kb)
DOI: 10.6084/m9.figshare.7686809.v1
title: Additional file 7: of Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model

description: wFol annotation. GenBank data file with the wFol annotation described in this paper. (GBK 2967 kb)
DOI: 10.7284/127373
title: TSG (Thermosalinograph) data collected during research cruise AT37-12 using a Sea-Bird SBE-45 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127390
title: Multiplexed data collected during research cruise AT37-13 using a WHOI Calliope instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686788
title: Additional file 4: of Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model

description: Results OrthoFinder analysis. This file contains multiple sheets with selected orthogroups derived from the Orthofinder analysis as well as the z-scores. (XLSX 1245 kb)
DOI: 10.6084/m9.figshare.7686788.v1
title: Additional file 4: of Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model

description: Results OrthoFinder analysis. This file contains multiple sheets with selected orthogroups derived from the Orthofinder analysis as well as the z-scores. (XLSX 1245 kb)
DOI: 10.7284/127379
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AT37-13 using a Hawaii UHDAS instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127384
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AT37-13 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127378
title: Expendable Probe data collected during research cruise AT37-13 using a Sippican MK12 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127396
title: Fluorometer data collected during research cruise AT37-13 using a WET Labs WETStar instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686743
title: Additional file 7: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs related to hormones during pollinated fruit set in MUCU-16 cultivar identified by accession, gene annotation, log2 fold change, fold change and hormone pathway), “AF MU16 vs UF MU16 (List of DEGs related to hormones during auxin treated fruit set in MUCU-16 cultivar by accession, gene annotation, log2 fold change, fold change and hormone pathway), “PF WHT vs UF WHT” (List of DEGs related to hormones during pollinated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change and hormone pathway), “AF WHT vs UF WHT (List of DEGs related to hormones during auxin treated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change and hormone pathway), “UF WHT vs UF MU16” (List of DEGs related to hormones during parthenocarpic fruit set by accession, gene annotation, log2 fold change, fold change and hormone pathway). (XLSX 72 kb) (XLSX 71 kb)
DOI: 10.6084/m9.figshare.7686734
title: Additional file 6: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs related to carbohydrate metabolism during pollinated fruit set in MUCU-16 cultivar identified by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “AF MU16 vs UF MU16 (List of DEGs related to carbohydrate metabolism during auxin treated fruit set in MUCU-16 cultivar by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “PF WHT vs UF WHT” (List of DEGs related to carbohydrate metabolism during pollinated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “AF WHT vs UF WHT (List of DEGs related to carbohydrate metabolism during auxin treated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “UF WHT vs UF MU16” (List of DEGs related to carbohydrate metabolism during parthenocarpic fruit set by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway). (XLSX 54 kb) (XLSX 53 kb)
DOI: 10.6084/m9.figshare.7686743.v1
title: Additional file 7: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs related to hormones during pollinated fruit set in MUCU-16 cultivar identified by accession, gene annotation, log2 fold change, fold change and hormone pathway), “AF MU16 vs UF MU16 (List of DEGs related to hormones during auxin treated fruit set in MUCU-16 cultivar by accession, gene annotation, log2 fold change, fold change and hormone pathway), “PF WHT vs UF WHT” (List of DEGs related to hormones during pollinated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change and hormone pathway), “AF WHT vs UF WHT (List of DEGs related to hormones during auxin treated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change and hormone pathway), “UF WHT vs UF MU16” (List of DEGs related to hormones during parthenocarpic fruit set by accession, gene annotation, log2 fold change, fold change and hormone pathway). (XLSX 72 kb) (XLSX 71 kb)
DOI: 10.7284/127376
title: GNSS (Global Navigation Satellite System) data collected during research cruise AT37-13 using a C&C C-Nav 3050 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686728
title: Additional file 4: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: List of DEGs related to cell division identified by accession, gene annotation, log2 fold change and fold change. (XLSX 20 kb) (XLSX 19 kb)
DOI: 10.6084/m9.figshare.7686731
title: Additional file 5: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs related to TFs during pollinated fruit set in MUCU-16 cultivar identified by accession, gene annotation, log2 fold change and fold change), “AF MU16 vs UF MU16 (List of DEGs related to TFs during auxin treated fruit set in MUCU-16 cultivar by accession, gene annotation, log2 fold change and fold change), “PF WHT vs UF WHT” (List of DEGs related to TFs during pollinated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change and fold change), “AF WHT vs UF WHT (List of DEGs related to TFs during auxin treated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change and fold change), “UF WHT vs UF MU16” (List of DEGs related to TFs during parthenocarpic fruit set by accession, gene annotation, log2 fold change and fold change). (XLSX 73 kb) (XLSX 72 kb)
DOI: 10.6084/m9.figshare.7686734.v1
title: Additional file 6: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs related to carbohydrate metabolism during pollinated fruit set in MUCU-16 cultivar identified by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “AF MU16 vs UF MU16 (List of DEGs related to carbohydrate metabolism during auxin treated fruit set in MUCU-16 cultivar by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “PF WHT vs UF WHT” (List of DEGs related to carbohydrate metabolism during pollinated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “AF WHT vs UF WHT (List of DEGs related to carbohydrate metabolism during auxin treated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway), “UF WHT vs UF MU16” (List of DEGs related to carbohydrate metabolism during parthenocarpic fruit set by accession, gene annotation, log2 fold change, fold change, ontology terms and KEGG pathway). (XLSX 54 kb) (XLSX 53 kb)
DOI: 10.6084/m9.figshare.7686731.v1
title: Additional file 5: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs related to TFs during pollinated fruit set in MUCU-16 cultivar identified by accession, gene annotation, log2 fold change and fold change), “AF MU16 vs UF MU16 (List of DEGs related to TFs during auxin treated fruit set in MUCU-16 cultivar by accession, gene annotation, log2 fold change and fold change), “PF WHT vs UF WHT” (List of DEGs related to TFs during pollinated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change and fold change), “AF WHT vs UF WHT (List of DEGs related to TFs during auxin treated fruit set in Whitaker cultivar by accession, gene annotation, log2 fold change and fold change), “UF WHT vs UF MU16” (List of DEGs related to TFs during parthenocarpic fruit set by accession, gene annotation, log2 fold change and fold change). (XLSX 73 kb) (XLSX 72 kb)
DOI: 10.6084/m9.figshare.7686722
title: Additional file 3: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (Ontology terms of protein products for DEGs during pollinated fruit set in MUCU-16 cultivar), “AF MU16 vs UF MU16 (Ontology terms of protein products for DEGs during auxin treated fruit set in MUCU-16 cultivar), “PF WHT vs UF WHT” (Ontology terms of protein products for DEGs during pollinated fruit set in Whitaker cultivar), “AF WHT vs UF WHT (Ontology terms of protein products for DEGs during auxin treated fruit set in Whitaker cultivar), “UF WHT vs UF MU16” (Ontology terms of protein products for DEGs during parthenocarpic fruit set). (XLSX 2238 kb) (XLSX 2237 kb)
DOI: 10.6084/m9.figshare.7686728.v1
title: Additional file 4: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: List of DEGs related to cell division identified by accession, gene annotation, log2 fold change and fold change. (XLSX 20 kb) (XLSX 19 kb)
DOI: 10.7284/127391
title: Gravimeter data collected during research cruise AT37-13 using a Bell BGM-3 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686716
title: Additional file 2: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (Functional annotation of DEGs during pollinated fruit set in MUCU-16 cultivar based on blast search), “AF MU16 vs UF MU16 (Functional annotation of DEGs during auxin treated fruit set in MUCU-16 cultivar based on blast search), “PF WHT vs UF WHT” (Functional annotation of DEGs during pollinated fruit set in Whitaker cultivar based on blast search), “AF WHT vs UF WHT (Functional annotation of DEGs during auxin treated fruit set in Whitaker cultivar based on blast search), “UF WHT vs UF MU16” (Functional annotation of DEGs during parthenocarpic fruit set based on blast search). (XLSX 6796 kb) (XLSX 6880 kb)
DOI: 10.6084/m9.figshare.7686722.v1
title: Additional file 3: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (Ontology terms of protein products for DEGs during pollinated fruit set in MUCU-16 cultivar), “AF MU16 vs UF MU16 (Ontology terms of protein products for DEGs during auxin treated fruit set in MUCU-16 cultivar), “PF WHT vs UF WHT” (Ontology terms of protein products for DEGs during pollinated fruit set in Whitaker cultivar), “AF WHT vs UF WHT (Ontology terms of protein products for DEGs during auxin treated fruit set in Whitaker cultivar), “UF WHT vs UF MU16” (Ontology terms of protein products for DEGs during parthenocarpic fruit set). (XLSX 2238 kb) (XLSX 2237 kb)
DOI: 10.6084/m9.figshare.7686710
title: Additional file 1: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs during pollinated fruit set in MUCU-16 with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “AFMU16 vs UF MU16 (List of DEGs during auxin treated fruit set in MUCU-16 cultivar with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “PF WHT vs UF WHT” (List of DEGs during pollinated fruit set in Whitaker cultivar with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “AF WHT vs UF WHT (List of DEGs during auxin treated fruit set in Whitaker cultivar with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “UF WHT vs UF MU16” (List of DEGs during parthenocarpic fruit set with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni). (XLSX 3123 kb) (XLSX 3122 kb)
DOI: 10.7284/127386
title: Meteorological Station data collected during research cruise AT37-13 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686716.v1
title: Additional file 2: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (Functional annotation of DEGs during pollinated fruit set in MUCU-16 cultivar based on blast search), “AF MU16 vs UF MU16 (Functional annotation of DEGs during auxin treated fruit set in MUCU-16 cultivar based on blast search), “PF WHT vs UF WHT” (Functional annotation of DEGs during pollinated fruit set in Whitaker cultivar based on blast search), “AF WHT vs UF WHT (Functional annotation of DEGs during auxin treated fruit set in Whitaker cultivar based on blast search), “UF WHT vs UF MU16” (Functional annotation of DEGs during parthenocarpic fruit set based on blast search). (XLSX 6796 kb) (XLSX 6880 kb)
DOI: 10.6084/m9.figshare.7686710.v1
title: Additional file 1: of First RNA-seq approach to study fruit set and parthenocarpy in zucchini (Cucurbita pepo L.)

description: Tables “PF MU16 vs UF MU16” (List of DEGs during pollinated fruit set in MUCU-16 with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “AFMU16 vs UF MU16 (List of DEGs during auxin treated fruit set in MUCU-16 cultivar with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “PF WHT vs UF WHT” (List of DEGs during pollinated fruit set in Whitaker cultivar with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “AF WHT vs UF WHT (List of DEGs during auxin treated fruit set in Whitaker cultivar with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni), “UF WHT vs UF MU16” (List of DEGs during parthenocarpic fruit set with their respective accession, length, Log2 fold change, relative fold change, p-value, FDR p-value and Bonferroni). (XLSX 3123 kb) (XLSX 3122 kb)
DOI: 10.7284/127397
title: Meteorological Station data collected during research cruise AT37-13 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127385
title: Multibeam Echosounder data collected during research cruise AT37-13 using a Kongsberg EM122 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127395
title: Radiometer data collected during research cruise AT37-13 using a Eppley RAD instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127402
title: Water Temperature data collected during research cruise AT37-13 using a Sea-Bird SBE-48 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127400
title: TSG (Thermosalinograph) data collected during research cruise AT37-13 using a Sea-Bird SBE-45 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127406
title: Multiplexed data collected during research cruise AT37-14 using a WHOI Calliope instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686608
title: Additional file 1: of Kinase inhibitor library screening identifies synergistic drug combinations effective in sensitive and resistant melanoma cells

description: Table S1. Kinase inhibitor library screening. A commercial kinase inhibitor library of 274 compounds was tested on 3 different BRAF mutant melanoma cell lines, A375, IGR37 and 501Mel. Each cell line was treated in its sensitive form (parental), and also as 2 resistant derivatives, which were made resistant to either Vemurafenib (XP) or Dabrafenib (GP). Drugs were added at 2 different concentrations, 1 and 10â ÎźM, for 72â h and cell viability was assessed using the PrestoBlue Cell Viability assay. Results are depicted as % viability compared to untreated cells. Each cell line was analyzed at least in duplicate. Inhibitors that were further analyzed and characterized in more detail are marked in red. (XLSX 95 kb)
DOI: 10.7284/127404
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AT37-14 using a Hawaii UHDAS instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7686608.v1
title: Additional file 1: of Kinase inhibitor library screening identifies synergistic drug combinations effective in sensitive and resistant melanoma cells

description: Table S1. Kinase inhibitor library screening. A commercial kinase inhibitor library of 274 compounds was tested on 3 different BRAF mutant melanoma cell lines, A375, IGR37 and 501Mel. Each cell line was treated in its sensitive form (parental), and also as 2 resistant derivatives, which were made resistant to either Vemurafenib (XP) or Dabrafenib (GP). Drugs were added at 2 different concentrations, 1 and 10â ÎźM, for 72â h and cell viability was assessed using the PrestoBlue Cell Viability assay. Results are depicted as % viability compared to untreated cells. Each cell line was analyzed at least in duplicate. Inhibitors that were further analyzed and characterized in more detail are marked in red. (XLSX 95 kb)
DOI: 10.7284/127409
title: Fluorometer data collected during research cruise AT37-14 using a WET Labs WETStar instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition