cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13194738.v1
title: Gastrodin promotes CNS myelination via a lncRNA Gm7237/miR-142a/MRF pathway

description: Treatment of central nervous system (CNS) demyelination is greatly hindered by lack of the knowledge regarding to underlying molecular mechanisms as well as therapeutic agents. Here, we report a novel small molecule agent, gastrodin (GAS), which can significantly promote CNS myelination in <i>in vivo</i> mice models. By using high-throughput sequencing analysis, we discover a key long non-coding RNA Gm7237 that can enhance CNS myelination and is up-regulated by GAS. Through using bioinformatic analysis and experimental validations, we further unravel that microRNA-142a (miR-142a) and its target myelin gene regulatory factor (MRF) is under the direct regulation by Gm7237. Finally, we demonstrate that Gm7237/miR-142a/MRF axis is the key pathway involved in CNS myelination mediated by GAS. Overall, our results provide not only a novel agent for therapeutic treatment of CNS demyelination but also a molecular basis responsible for GAS-promoted CNS myelination.
DOI: 10.6084/m9.figshare.16864768
title: Additional file 4 of An Ensemble Deep Learning based Predictor for Simultaneously Identifying Protein Ubiquitylation and SUMOylation Sites

description: Additional file 4. Table S4: All fragments of retrieved proteins
DOI: 10.6084/m9.figshare.20003652
title: Additional file 4 of Integrative transcriptome and proteome analyses of Trichoderma longibrachiatum LC and its cellulase hyper-producing mutants generated by heavy ion mutagenesis reveal the key genes involved in cellulolytic enzymes regulation

description: Additional file 4: Table S4. Gene differentially expressed analysis and result of LC-M16_vs_LC.
DOI: 10.6084/m9.figshare.20003661.v1
title: Additional file 7 of Integrative transcriptome and proteome analyses of Trichoderma longibrachiatum LC and its cellulase hyper-producing mutants generated by heavy ion mutagenesis reveal the key genes involved in cellulolytic enzymes regulation

description: Additional file 7: Table S6. Common shared DEPs and DEGs of LC-M4 vs LC.
DOI: 10.6084/m9.figshare.20003652.v1
title: Additional file 4 of Integrative transcriptome and proteome analyses of Trichoderma longibrachiatum LC and its cellulase hyper-producing mutants generated by heavy ion mutagenesis reveal the key genes involved in cellulolytic enzymes regulation

description: Additional file 4: Table S4. Gene differentially expressed analysis and result of LC-M16_vs_LC.
DOI: 10.6084/m9.figshare.16864768.v1
title: Additional file 4 of An Ensemble Deep Learning based Predictor for Simultaneously Identifying Protein Ubiquitylation and SUMOylation Sites

description: Additional file 4. Table S4: All fragments of retrieved proteins
DOI: 10.6084/m9.figshare.20003634.v1
title: Additional file 2 of The Kandelia obovata transcription factor KoWRKY40 enhances cold tolerance in transgenic Arabidopsis

description: Additional file 2: Supplementary Table S1 Gene primers used in real-time RT-PCR.
DOI: 10.17632/8g3fxwcxzk.1
title: CARE checklist for ‘Management of COVID-19 in a sickle cell anaemia patient’

description: CARE checklist for ‘Management of COVID-19 in a sickle cell anaemia patient’
DOI: 10.6084/m9.figshare.20003877.v1
title: Additional file 1 of Three-port single-intercostal versus uniportal thoracoscopic segmentectomy for the treatment of lung cancer: a propensity score matching analysis

description: Additional file 1.
DOI: 10.5281/zenodo.10635307
title: Raimi and Phiri water data

description: data for water experiment performed in humewood, port eilzabeth, South Africa
DOI: 10.5281/zenodo.10635308
title: Raimi and Phiri water data

description: data for water experiment performed in humewood, port eilzabeth, South Africa
DOI: 10.6084/m9.figshare.22625288.v1
title: Additional file 2 of Binding proteins of destruxin A from Metarhizium against insect cell

description: Additional file 2: Table S2. Candidate DA binding protein isolated in live cell group.
DOI: 10.6084/m9.figshare.22625323.v1
title: Additional file 3 of PCGF6/MAX/KDM5D facilitates MAZ/CDK4 axis expression and pRCC progression by hypomethylation of the DNA promoter

description: Additional file 3. The proteins interacting with PCGF6 were analyzed by mass spectrometry.
DOI: 10.7284/157694
title: INS (Inertial Navigation System) data collected during research cruise NA155 using a Kongsberg Seatex MRU-5 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.22625285
title: Additional file 1 of Binding proteins of destruxin A from Metarhizium against insect cell

description: Additional file 1: Table S1. Candidate DA binding protein isolated in cell lysis group.
DOI: 10.6084/m9.figshare.22625285.v1
title: Additional file 1 of Binding proteins of destruxin A from Metarhizium against insect cell

description: Additional file 1: Table S1. Candidate DA binding protein isolated in cell lysis group.
DOI: 10.7284/157695
title: Multibeam Echosounder data collected during research cruise NA155 using a Kongsberg EM302 instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.22625276
title: Additional file 1 of BarleyExpDB: an integrative gene expression database for barley

description: Additional file 1: SupplementaryTable 1. Detail sample informationof the RNA-seq datasets downloaded from the NCBI SRA database.
DOI: 10.6084/m9.figshare.5862312
title: Exploring the natural chemiome to target interleukin-6 receptor (IL-6R) cytokines: an atomic scale investigation for novel rheumatoid arthritis drug discovery

description: ABSTRACT Natural compounds are a gold mine for treating rheumatoid arthritis (RA). The etiology of this disease is linked to inflammation, where cytokines play an important role. Strategies have been drafted for targeting cytokines as a therapeutic option in patients with RA. Inhibiting cytokines with natural compounds has become a major focus for the development of drugs to treat RA. Here, a structure-based drug design approach was employed to identify novel leads to target the interleukin 6 receptor (IL-6R). A total of 48,531 compounds of natural origin were screened. Two of these compounds were shortlisted for molecular docking simulation and tested for inhibiting gp130 dimerization in human macrophages. The results show that Lead5 (CID5329098) significantly inhibited the release of gp130 in a dose-dependent manner, similar to the inhibitory effect of LMT-28 (p&lt;0.005). This study provides an atomic scale outcome of a single natural compound that can be developed into a RA drug.
DOI: 10.14473/csda/dikgg8/uryus3
title: D_V1410.pdf

description: Dotazník
DOI: 10.6084/m9.figshare.22625276.v1
title: Additional file 1 of BarleyExpDB: an integrative gene expression database for barley

description: Additional file 1: SupplementaryTable 1. Detail sample informationof the RNA-seq datasets downloaded from the NCBI SRA database.
DOI: 10.14473/csda/dikgg8/hk7zel
title: NS_1410_DataFile_bez_jmen.tab

description: Data
DOI: 10.7284/157699
title: SSV (Sound Speed Velocimeter) data collected during research cruise NA155 using a AML AML-3 RT instrument system onboard the platform EV Nautilus

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.14473/csda/dikgg8/fxuv9r
title: PR02_V1410.pdf

description: Občané o ekonomické situaci svých domácností – říjen 2014. Tisková zpráva CVVM.
DOI: 10.7284/155902
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SKQ202304S using a SeaBird SBE-911+ instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.22625426
title: Additional file 11 of Clinical and biological heterogeneities in triple-negative breast cancer reveals a non-negligible role of HER2-low

description: Additional file 11: Table S4. Showing TNBC population included for overall survival analysis in Kaplan–Meier database.
DOI: 10.7284/155905
title: Multibeam Echosounder data collected during research cruise SKQ202304S using a Kongsberg EM302 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.22625417.v1
title: Additional file 8 of Clinical and biological heterogeneities in triple-negative breast cancer reveals a non-negligible role of HER2-low

description: Additional file 8: Table S1. Showing the detailed clinical information and follow-up data of the enrolled TNBC population.
DOI: 10.7284/156054
title: Anemometer data collected during research cruise SKQ202310S using a Gill WindObserver 75 instrument system onboard the platform RV Sikuliaq

description: Processed data created by vessel technician during a Field_expedition
DOI: 10.6084/m9.figshare.22625423.v1
title: Additional file 10 of Clinical and biological heterogeneities in triple-negative breast cancer reveals a non-negligible role of HER2-low

description: Additional file 10: Table S3. Showing gene markers of all cell types in this study.
DOI: 10.7284/156045
title: Gravimeter data collected during research cruise SKQ202310S using a Bell BGM-3 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/156056
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SKQ202310S using a SeaBird SBE-911+ instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/156063
title: Meteorological Station data collected during research cruise SKQ202310S using a Paroscientific MET4A instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/156069
title: Radiometer data collected during research cruise SKQ202310S using a KippZonen SGR4 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17632/27rpjvbvcg.1
title: Data of Characteristics of storm deposits in Wangcun Lagoon on the southern China coast during Typhoon Rammasun

description: The data of the 210Pb, grain size, TOC, C/N, δ13Corg, diatoms and foraminifera in cores sediment samples from Wangcun Lagoon on the southern China coast, are presented here. This data were collected during two surveys: one in 14 July 2014 and one in 22 August 2014, i.e., before and after the passage of Typhoon Rammasun. The 210Pb activity was analysed with a 7200-8 alpha spectrometer (Canberra, France). For grain size analysis, the coarse fraction of a sample (&gt;1 mm) was first sieved, and the fine particle fraction was analysed using a Mastersizer 2000 laser particle size analyzer (test range: 0.02–2000 μm). For geochemistry analysis, TOC, C/N, and δ13Corg was analysed using the Vario Isotope cube-IsoPrime 100 (Elementar) element analysis isotope ratio mass spectrometer (EA-IRMS). Diatom identification was performed using an optical microscope (Olympus BX51). Foraminiferal identification was through the banding method with a binocular stereomicroscope. Samples and slides of all samples are held at the Third Institute of Oceanography of the Ministry of Natural Resources in Xiamen (P.R. China).
DOI: 10.7284/155893
title: Flowmeter data collected during research cruise SKQ202304S using a Krohne Optiflux 5000 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/155895
title: Gyrocompass data collected during research cruise SKQ202304S using a Sperry NAVIGAT 2100 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/156055
title: Anemometer data collected during research cruise SKQ202310S using a Gill WindObserver 75 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7959500
title: Cross-regulation of defective endolysosome trafficking and enhanced autophagy through TFEB in UNC13D deficiency

description: Several lines of evidence support the occurrence of cross-regulation between the endocytic pathway and autophagy, but the molecular mechanisms regulating this process are not well-understood. Here, we show that the calcium sensor UNC13D regulates the molecular mechanism of late endosomal trafficking and endosomal maturation, and defects in UNC13D lead to macroautophagy upregulation. <i>unc13d</i>-null cells showed impaired endosomal trafficking and defective endocytic flux. The defective phenotypes were rescued by the expression of UNC13D but not by its STX7-binding-deficient mutant. This defective endosomal function in UNC13D-deficient cells resulted in increased autophagic flux, increased long-lived protein degradation, decreased SQSTM1/p62 protein levels and increased autolysosome formation as determined by biochemical, microscopy and structural methods. The autophagic phenotype was not associated with increased recruitment of the UNC13D-binding proteins and autophagy regulators, RAB11 or VAMP8, but was caused, at least in part, by TFEB-mediated upregulation of a subset of autophagic and lysosomal genes, including <i>Atg9b</i>. Downregulation of TFEB decreased <i>Atg9b</i> levels and decreased macroautophagy in <i>unc13d</i>-null cells. UNC13D upregulation corrected the defects in endolysosomal trafficking and decreased the number of accumulated autophagosomes in a cellular model of the lysosomal-storage disorder cystinosis, under both fed and starvation conditions, identifying UNC13D as an important new regulatory molecule of autophagy regulation in cells with lysosomal disorders. ACTB: actin, beta; CTSB: cathepsin B; EEA1: early endosome antigen 1; ESCRT: endosomal sorting complex required for transport; FHL3: familial hemophagocytic; lymphohistiocytosis type 3; HEX: hexosaminidase; HLH: hemophagocytic lymphohistiocytosis; LSD: lysosomal storage disorder; MEF: mouse embryonic fibroblast; SEM: standard errors of the mean; SNARE: soluble n-ethylmaleimide-sensitive-factor attachment receptor; STX: syntaxin; SYT7: synaptotagmin VII; TFE3: transcription factor E3; TFEB: transcription factor EB; TIRF: total internal reflection fluorescence ULK1: unc-51 like kinase 1; UNC13D: unc-13 homolog d; VAMP: vesicle-associate membrane protein; WT: wild-type
DOI: 10.7284/156060
title: Multibeam Echosounder data collected during research cruise SKQ202310S using a Kongsberg EM710 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.14473/csda/dikgg8/afczme
title: PR05_V1410.pdf

description: Dvacet pět let od Sametové revoluce očima občanů ČR a SR. Tisková zpráva CVVM.
DOI: 10.14473/csda/dikgg8/iknfah
title: TI_V1410.pdf

description: Technická informace
DOI: 10.14473/csda/dikgg8/zhzman
title: PR10_V1410.pdf

description: Stranické preference a volební model v říjnu 2014. Tisková zpráva CVVM.
DOI: 10.14473/csda/dikgg8/2grxna
title: PR04_V1410.pdf

description: Názory na fungování demokracie v ČR
a nedemokratické alternativy politického systému – říjen 2014. Tisková zpráva CVVM.
DOI: 10.17632/32rw5d37wb.1
title: Bond strength of Polyalkasite cements with various surface preparations

description: This study aimed evaluate the effect of different surface treatments on the repair bond strength between existing and new Cention N restorative material.
DOI: 10.6084/m9.figshare.13719024.v1
title: Additional file 4 of Comparison between nab-paclitaxel and solvent-based taxanes as neoadjuvant therapy in breast cancer: a systematic review and meta-analysis

description: Additional file 4: Supplementary Figure S4. (A) Funnel plot of pathological complete response (pCR). (B) Funnel plot of objective response rate (ORR).
DOI: 10.6084/m9.figshare.7959500.v2
title: Cross-regulation of defective endolysosome trafficking and enhanced autophagy through TFEB in UNC13D deficiency

description: Several lines of evidence support the occurrence of cross-regulation between the endocytic pathway and autophagy, but the molecular mechanisms regulating this process are not well-understood. Here, we show that the calcium sensor UNC13D regulates the molecular mechanism of late endosomal trafficking and endosomal maturation, and defects in UNC13D lead to macroautophagy upregulation. <i>unc13d</i>-null cells showed impaired endosomal trafficking and defective endocytic flux. The defective phenotypes were rescued by the expression of UNC13D but not by its STX7-binding-deficient mutant. This defective endosomal function in UNC13D-deficient cells resulted in increased autophagic flux, increased long-lived protein degradation, decreased SQSTM1/p62 protein levels and increased autolysosome formation as determined by biochemical, microscopy and structural methods. The autophagic phenotype was not associated with increased recruitment of the UNC13D-binding proteins and autophagy regulators, RAB11 or VAMP8, but was caused, at least in part, by TFEB-mediated upregulation of a subset of autophagic and lysosomal genes, including <i>Atg9b</i>. Downregulation of TFEB decreased <i>Atg9b</i> levels and decreased macroautophagy in <i>unc13d</i>-null cells. UNC13D upregulation corrected the defects in endolysosomal trafficking and decreased the number of accumulated autophagosomes in a cellular model of the lysosomal-storage disorder cystinosis, under both fed and starvation conditions, identifying UNC13D as an important new regulatory molecule of autophagy regulation in cells with lysosomal disorders. ACTB: actin, beta; CTSB: cathepsin B; EEA1: early endosome antigen 1; ESCRT: endosomal sorting complex required for transport; FHL3: familial hemophagocytic; lymphohistiocytosis type 3; HEX: hexosaminidase; HLH: hemophagocytic lymphohistiocytosis; LSD: lysosomal storage disorder; MEF: mouse embryonic fibroblast; SEM: standard errors of the mean; SNARE: soluble n-ethylmaleimide-sensitive-factor attachment receptor; STX: syntaxin; SYT7: synaptotagmin VII; TFE3: transcription factor E3; TFEB: transcription factor EB; TIRF: total internal reflection fluorescence ULK1: unc-51 like kinase 1; UNC13D: unc-13 homolog d; VAMP: vesicle-associate membrane protein; WT: wild-type
DOI: 10.6084/m9.figshare.22625288
title: Additional file 2 of Binding proteins of destruxin A from Metarhizium against insect cell

description: Additional file 2: Table S2. Candidate DA binding protein isolated in live cell group.
DOI: 10.6084/m9.figshare.7959500.v1
title: Cross-regulation of defective endolysosome trafficking and enhanced autophagy through TFEB in UNC13D deficiency

description: Several lines of evidence support the occurrence of cross-regulation between the endocytic pathway and autophagy, but the molecular mechanisms regulating this process are not well-understood. Here, we show that the calcium sensor UNC13D regulates the molecular mechanism of late endosomal trafficking and endosomal maturation, and defects in UNC13D lead to macroautophagy upregulation. <i>unc13d</i>-null cells showed impaired endosomal trafficking and defective endocytic flux. The defective phenotypes were rescued by the expression of UNC13D but not by its STX7-binding-deficient mutant. This defective endosomal function in UNC13D-deficient cells resulted in increased autophagic flux, increased long-lived protein degradation, decreased SQSTM1/p62 protein levels and increased autolysosome formation as determined by biochemical, microscopy and structural methods. The autophagic phenotype was not associated with increased recruitment of the UNC13D-binding proteins and autophagy regulators, RAB11 or VAMP8, but was caused, at least in part, by TFEB-mediated upregulation of a subset of autophagic and lysosomal genes, including <i>Atg9b</i>. Downregulation of TFEB decreased <i>Atg9b</i> levels and decreased macroautophagy in <i>unc13d</i>-null cells. UNC13D upregulation corrected the defects in endolysosomal trafficking and decreased the number of accumulated autophagosomes in a cellular model of the lysosomal-storage disorder cystinosis, under both fed and starvation conditions, identifying UNC13D as an important new regulatory molecule of autophagy regulation in cells with lysosomal disorders. <b>Abbreviations</b> ACTB: actin, beta; CTSB: cathepsin B; EEA1: early endosome antigen 1; ESCRT: endosomal sorting complex required for transport; FHL3: familial hemophagocytic; lymphohistiocytosis type 3; HEX: hexosaminidase; HLH: hemophagocytic lymphohistiocytosis; LSD: lysosomal storage disorder; MEF: mouse embryonic fibroblast; SEM: standard errors of the mean; SNARE: soluble n-ethylmaleimide-sensitive-factor attachment receptor; STX: syntaxin; SYT7: synaptotagmin VII; TFE3: transcription factor E3; TFEB: transcription factor EB; TIRF: total internal reflection fluorescence ULK1: unc-51 like kinase 1; UNC13D: unc-13 homolog d; VAMP: vesicle-associate membrane protein; WT: wild-type
DOI: 10.7284/155901
title: Anemometer data collected during research cruise SKQ202304S using a Gill WindObserver 75 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/155907
title: Splitbeam Echosounder data collected during research cruise SKQ202304S using a Kongsberg EK80 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/155909
title: Anemometer data collected during research cruise SKQ202304S using a RMYoung 85004 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/155914
title: Radiometer data collected during research cruise SKQ202304S using a KippZonen SGR4 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/155903
title: INS (Inertial Navigation System) data collected during research cruise SKQ202304S using a Kongsberg Seapath 320+ instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/156066
title: Anemometer data collected during research cruise SKQ202310S using a RMYoung 85004 instrument system onboard the platform RV Sikuliaq

description: Processed data created by vessel technician during a Field_expedition
DOI: 10.7284/156067
title: Anemometer data collected during research cruise SKQ202310S using a RMYoung 85004 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/155906
title: Water Temperature data collected during research cruise SKQ202304S using a SeaBird SBE-38 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/156059
title: Multibeam Echosounder data collected during research cruise SKQ202310S using a Kongsberg EM710 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/156052
title: TSG (Thermosalinograph) data collected during research cruise SKQ202310S using a SeaBird SBE-45 instrument system onboard the platform RV Sikuliaq

description: Original (unprocessed) data collected during a Field_expedition