cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11960847
title: Pre-Prototype Stimulating and Recording Endotracheal Tube for Continuous Monitoring of the Recurrent Laryngeal Nerve During Thyroid Surgery

description: Continuous intraoperative neural monitoring (C-IONM) is a promising technology used to decrease recurrent laryngeal nerve (RLN) damage during thyroid surgery. However, C-IONM use is limited due to its challenging application. C-IONM requires dissection of the carotid sheath and placement of an electrode around the vagus nerve (VN). In our study, we simultaneously stimulated and monitored the proximal RLN trans-tracheally using surface electrodes that were positioned solely on the endotracheal tube. We described the design, implementation, and testing of a pre-prototype, combined stimulating and recording endotracheal tube (SRET) that continually delivered current from tube edge, and tested the function of the RLN at the vocal cords (VC). The SRET was tested in vivo on 10 RLNs using 5 pigs as animal models. The SRET was capable of the following, delivery of continuous trans-tracheal stimulation to the proximal RLN, continuous trans-tracheal stimulation-induced VC movement, and standard ipsilateral RLN biphasic waveforms with latency and amplitude; and recording evoked responses were recorded in the ipsilateral RLN. The pre-prototype SRET represents a possible advancement in technology because it simplified the C-IONM. Thus, the SRET provides a minimally invasive, alternative application to the C-IONM vagal nerve cuff electrodes.
DOI: 10.6084/m9.figshare.11960847.v1
title: Pre-Prototype Stimulating and Recording Endotracheal Tube for Continuous Monitoring of the Recurrent Laryngeal Nerve During Thyroid Surgery

description: Continuous intraoperative neural monitoring (C-IONM) is a promising technology used to decrease recurrent laryngeal nerve (RLN) damage during thyroid surgery. However, C-IONM use is limited due to its challenging application. C-IONM requires dissection of the carotid sheath and placement of an electrode around the vagus nerve (VN). In our study, we simultaneously stimulated and monitored the proximal RLN trans-tracheally using surface electrodes that were positioned solely on the endotracheal tube. We described the design, implementation, and testing of a pre-prototype, combined stimulating and recording endotracheal tube (SRET) that continually delivered current from tube edge, and tested the function of the RLN at the vocal cords (VC). The SRET was tested in vivo on 10 RLNs using 5 pigs as animal models. The SRET was capable of the following, delivery of continuous trans-tracheal stimulation to the proximal RLN, continuous trans-tracheal stimulation-induced VC movement, and standard ipsilateral RLN biphasic waveforms with latency and amplitude; and recording evoked responses were recorded in the ipsilateral RLN. The pre-prototype SRET represents a possible advancement in technology because it simplified the C-IONM. Thus, the SRET provides a minimally invasive, alternative application to the C-IONM vagal nerve cuff electrodes.
DOI: 10.6084/m9.figshare.11960859
title: GREM1 inhibits osteogenic differentiation, senescence and BMP transcription of adipose-derived stem cells

description: <b>Purpose</b>: Adipose-derived stem cells (ADSCs) are ideal for cell-based therapies to support bone regeneration. It is vital to understand the critical genes and molecular mechanisms involved in the functional regulation of ADSCs for enhancing bone regeneration. In the present study, we investigated the Gremlin 1 (GREM1) effect on ADSCs osteogenic differentiation and senescence. <b>Materials and methods</b>: The <i>in vitro</i> ADSCs osteogenic differentiation potential was evaluated by determining alkaline phosphatase (ALP) activity, mineralization ability, and the expression of osteogenic markers. Cell senescence is determined by SA-β-gal staining, telomerase assay, and the expression of aging markers. <b>Results</b>: GREM1 overexpression in ADSCs reduced ALP activity and mineralization, inhibited the expression of osteogenic related genes <i>OCN, OPN, DSPP, DMP1</i>, and <i>BSP</i>, and key transcription factors, <i>RUNX2</i> and <i>OSX</i>. GREM1 knockdown in ADSCs enhanced ALP activity and mineralization, promoted the expression of <i>OCN, OPN, DSPP, DMP1, BSP, RUNX2</i>, and <i>OSX</i>. GREM1 overexpression in ADSCs reduced the percent SA-β-Gal positive cells, <i>P16</i> and <i>P53</i> expressions, and increased telomerase activity. GREM1 knockdown in ADSCs increased the percentage of SA-β-Gal positive cells, <i>P16</i> and <i>P53</i> expressions, and reduced telomerase activity. Furthermore, GREM1 reduced the mRNA expression levels of BMP2, BMP6, and BMP7. <b>Conclusions</b>: In summary, our findings suggested that GREM1 inhibited ADSCs senescence and osteogenic differentiation and antagonized BMP transcription.
DOI: 10.6084/m9.figshare.11960859.v1
title: GREM1 inhibits osteogenic differentiation, senescence and BMP transcription of adipose-derived stem cells

description: <b>Purpose</b>: Adipose-derived stem cells (ADSCs) are ideal for cell-based therapies to support bone regeneration. It is vital to understand the critical genes and molecular mechanisms involved in the functional regulation of ADSCs for enhancing bone regeneration. In the present study, we investigated the Gremlin 1 (GREM1) effect on ADSCs osteogenic differentiation and senescence. <b>Materials and methods</b>: The <i>in vitro</i> ADSCs osteogenic differentiation potential was evaluated by determining alkaline phosphatase (ALP) activity, mineralization ability, and the expression of osteogenic markers. Cell senescence is determined by SA-β-gal staining, telomerase assay, and the expression of aging markers. <b>Results</b>: GREM1 overexpression in ADSCs reduced ALP activity and mineralization, inhibited the expression of osteogenic related genes <i>OCN, OPN, DSPP, DMP1</i>, and <i>BSP</i>, and key transcription factors, <i>RUNX2</i> and <i>OSX</i>. GREM1 knockdown in ADSCs enhanced ALP activity and mineralization, promoted the expression of <i>OCN, OPN, DSPP, DMP1, BSP, RUNX2</i>, and <i>OSX</i>. GREM1 overexpression in ADSCs reduced the percent SA-β-Gal positive cells, <i>P16</i> and <i>P53</i> expressions, and increased telomerase activity. GREM1 knockdown in ADSCs increased the percentage of SA-β-Gal positive cells, <i>P16</i> and <i>P53</i> expressions, and reduced telomerase activity. Furthermore, GREM1 reduced the mRNA expression levels of BMP2, BMP6, and BMP7. <b>Conclusions</b>: In summary, our findings suggested that GREM1 inhibited ADSCs senescence and osteogenic differentiation and antagonized BMP transcription.
DOI: 10.5281/zenodo.10698521
title: Interview transcripts for the study entitled "Exploring stereotypes, bias, and expectations of women in the open data context"

description: This dataset contains the raw data from the study entitled "Exploring Women's Stereotypes, Biases and Expectations in the Context of Open Data". The file is the transcript of the interviews conducted to achieve the objective of this work. The objective was to provide a qualitative analysis, based on semi-structured interviews, of the knowledge, beliefs and future perspectives of key women working in various fields in the context of open data.
DOI: 10.6084/m9.figshare.11961234
title: Hydrothermal preparation, crystal structure, a series of properties and theoretical calculation of a novel cadmium compound

description: A novel cadmium compound [CdL(bipy)<sub>2</sub>]·6H<sub>2</sub>O was synthesized by hydrothermal method, and its crystal structure was determined by single-crystal X-ray diffraction. The title compound crystallized in the monoclinic system of the <i>C</i>2<i>/c</i> space group, and existed as an isolated monocyte structure. The strong π…π stacking interactions produces one-dimensional (1-<i>D</i>) chains and a three-dimensional (3-<i>D</i>) supramolecular structure is formed by a large number of intermolecular hydrogen bonds . A series of properties of the title compound were tested by solid state photoluminescence, CIE analysis and solid-state diffuse reflectance, and the charge transfer of the title compound was studied by time-dependent density functional theory.
DOI: 10.6084/m9.figshare.11961234.v1
title: Hydrothermal preparation, crystal structure, a series of properties and theoretical calculation of a novel cadmium compound

description: A novel cadmium compound [CdL(bipy)<sub>2</sub>]·6H<sub>2</sub>O was synthesized by hydrothermal method, and its crystal structure was determined by single-crystal X-ray diffraction. The title compound crystallized in the monoclinic system of the <i>C</i>2<i>/c</i> space group, and existed as an isolated monocyte structure. The strong π…π stacking interactions produces one-dimensional (1-<i>D</i>) chains and a three-dimensional (3-<i>D</i>) supramolecular structure is formed by a large number of intermolecular hydrogen bonds . A series of properties of the title compound were tested by solid state photoluminescence, CIE analysis and solid-state diffuse reflectance, and the charge transfer of the title compound was studied by time-dependent density functional theory.
DOI: 10.6084/m9.figshare.6194165
title: Collaborative Vehicle Routing Problem with Rough Location using Extended Ant Colony Optimization Algorithm

description: This is the experimental data of the manuscript
entitled "Collaborative Vehicle Routing Problem with Rough Location using
Extended Ant Colony Optimization Algorithm". All data are generated
through computer simulation and saved in the file with txt format. The data are
consistent with the real-world case. For example, DATA_N_60_D_4_V_12 represents
the case that contains 4 depots, 60 customers and 12 vehicles. The “DATA_N_77_D_3_V_9.txt”
and “DATA_N_97_D_3_V_9.txt” are used in Section 5.2 as illustrative examples
corresponding to figure 4 and figure 5, respectively. Other data are used in
Section 5.3.
DOI: 10.6084/m9.figshare.11437059
title: Determination of antiviral action of long non-coding RNA loc107051710 during infectious bursal disease virus infection due to enhancement of interferon production

description: The functions and profiles of lncRNAs during infectious bursal disease virus (IBDV) infection have not been determined, yet. The objectives of this study were to determine the antiviral action of loc107051710 lncRNA during IBDV infection by investigating the relationship between loc107051710 and IRF8, Type I IFN, STATs, and ISGs. DF-1 cells were either left untreated as non-infected controls (n = 1) or infected with IBDV (n = 3). RNA sequencing was applied for analysis of mRNAs and lncRNAs expression. Differentially expressed genes were verified by RT-qPCR. Then identification, of 230 significantly different expressed genes (182 mRNAs and 48 lncRNA) by pairwise comparison of the infected and control groups, was carried out. The functions of differentially expressed lncRNAs were investigated by selection of lncRNAs and mRNAs significantly enriched in the aforementioned biological processes and signaling pathways for construction of lncRNA-mRNA co-expression networks. The techniques of gene ontology and Kyoto Encyclopedia of Genes and Genomes pathways were applied. It was suggested that these differentially expressed genes were involved in the interaction between the host and IBDV. Loc107051710 was found to have potential antiviral effects. RT-qPCR and western blot were applied and revealed that loc107051710 was required for induction of IRF8, type I IFN, STAT, and ISG expression, and its knockdown promoted IBDV replication. By fluorescence in situ hybridization, it was found that loc107051710 was translocated from the nucleus to the cytoplasm after infection with IBDV. Overall, loc107051710 promoted the production of IFN-α and IFN-β by regulating IRF8, thereby promoting the antiviral activity of ISGs.
DOI: 10.6084/m9.figshare.11437059.v1
title: Determination of antiviral action of Long Non-coding RNA loc107051710 During Infectious Bursal Disease Virus Infection due to Enhancement of Interferon Production

description: The functions and profiles of lncRNAs during infectious bursal disease virus (IBDV) infection have not been determined, yet. The objectives of this study were to determine the antiviral action of loc107051710 lncRNA during IBDV infection by investigating the relationship between loc107051710 and IRF8, Type I IFN, STATs, and ISGs. DF-1 cells were either left untreated as non-infected controls (n=1) or infected with IBDV (n=3). RNA sequencing was applied for analysis of mRNAs and lncRNAs expression. Differentially expressed genes were verified by RT-qPCR. Then identification, of 230 significantly different expressed genes (182 mRNAs and 48 lncRNA) by pairwise comparison of the infected and control groups, was carried out. The functions of differentially expressed lncRNAs were investigated by selection of lncRNAs and mRNAs significantly enriched in the aforementioned biological processes and signaling pathways for construction of lncRNA-mRNA co-expression networks. The techniques of gene ontology and Kyoto Encyclopedia of Genes and Genomes pathways were applied. It was suggested that these differentially expressed genes were involved in the interaction between the host and IBDV. Loc107051710 was found to have potential antiviral effects. RT-qPCR and western blot were applied and revealed that loc107051710 was required for induction of IRF8, type I IFN, STAT, and ISG expression, and its knockdown promoted IBDV replication. By fluorescence in situ hybridization, it was found that loc107051710 was translocated from the nucleus to the cytoplasm after infection with IBDV. Overall, loc107051710 promoted the production of IFN-α and IFN-β by regulating IRF8, thereby promoting the antiviral activity of ISGs.
DOI: 10.6084/m9.figshare.11437059.v2
title: Determination of antiviral action of long non-coding RNA loc107051710 during infectious bursal disease virus infection due to enhancement of interferon production

description: The functions and profiles of lncRNAs during infectious bursal disease virus (IBDV) infection have not been determined, yet. The objectives of this study were to determine the antiviral action of loc107051710 lncRNA during IBDV infection by investigating the relationship between loc107051710 and IRF8, Type I IFN, STATs, and ISGs. DF-1 cells were either left untreated as non-infected controls (n = 1) or infected with IBDV (n = 3). RNA sequencing was applied for analysis of mRNAs and lncRNAs expression. Differentially expressed genes were verified by RT-qPCR. Then identification, of 230 significantly different expressed genes (182 mRNAs and 48 lncRNA) by pairwise comparison of the infected and control groups, was carried out. The functions of differentially expressed lncRNAs were investigated by selection of lncRNAs and mRNAs significantly enriched in the aforementioned biological processes and signaling pathways for construction of lncRNA-mRNA co-expression networks. The techniques of gene ontology and Kyoto Encyclopedia of Genes and Genomes pathways were applied. It was suggested that these differentially expressed genes were involved in the interaction between the host and IBDV. Loc107051710 was found to have potential antiviral effects. RT-qPCR and western blot were applied and revealed that loc107051710 was required for induction of IRF8, type I IFN, STAT, and ISG expression, and its knockdown promoted IBDV replication. By fluorescence in situ hybridization, it was found that loc107051710 was translocated from the nucleus to the cytoplasm after infection with IBDV. Overall, loc107051710 promoted the production of IFN-α and IFN-β by regulating IRF8, thereby promoting the antiviral activity of ISGs.
DOI: 10.6084/m9.figshare.11437059.v4
title: Determination of antiviral action of long non-coding RNA loc107051710 during infectious bursal disease virus infection due to enhancement of interferon production

description: The functions and profiles of lncRNAs during infectious bursal disease virus (IBDV) infection have not been determined, yet. The objectives of this study were to determine the antiviral action of loc107051710 lncRNA during IBDV infection by investigating the relationship between loc107051710 and IRF8, Type I IFN, STATs, and ISGs. DF-1 cells were either left untreated as non-infected controls (n = 1) or infected with IBDV (n = 3). RNA sequencing was applied for analysis of mRNAs and lncRNAs expression. Differentially expressed genes were verified by RT-qPCR. Then identification, of 230 significantly different expressed genes (182 mRNAs and 48 lncRNA) by pairwise comparison of the infected and control groups, was carried out. The functions of differentially expressed lncRNAs were investigated by selection of lncRNAs and mRNAs significantly enriched in the aforementioned biological processes and signaling pathways for construction of lncRNA-mRNA co-expression networks. The techniques of gene ontology and Kyoto Encyclopedia of Genes and Genomes pathways were applied. It was suggested that these differentially expressed genes were involved in the interaction between the host and IBDV. Loc107051710 was found to have potential antiviral effects. RT-qPCR and western blot were applied and revealed that loc107051710 was required for induction of IRF8, type I IFN, STAT, and ISG expression, and its knockdown promoted IBDV replication. By fluorescence in situ hybridization, it was found that loc107051710 was translocated from the nucleus to the cytoplasm after infection with IBDV. Overall, loc107051710 promoted the production of IFN-α and IFN-β by regulating IRF8, thereby promoting the antiviral activity of ISGs.
DOI: 10.6084/m9.figshare.11437059.v3
title: Determination of antiviral action of long non-coding RNA loc107051710 during infectious bursal disease virus infection due to enhancement of interferon production

description: The functions and profiles of lncRNAs during infectious bursal disease virus (IBDV) infection have not been determined, yet. The objectives of this study were to determine the antiviral action of loc107051710 lncRNA during IBDV infection by investigating the relationship between loc107051710 and IRF8, Type I IFN, STATs, and ISGs. DF-1 cells were either left untreated as non-infected controls (n = 1) or infected with IBDV (n = 3). RNA sequencing was applied for analysis of mRNAs and lncRNAs expression. Differentially expressed genes were verified by RT-qPCR. Then identification, of 230 significantly different expressed genes (182 mRNAs and 48 lncRNA) by pairwise comparison of the infected and control groups, was carried out. The functions of differentially expressed lncRNAs were investigated by selection of lncRNAs and mRNAs significantly enriched in the aforementioned biological processes and signaling pathways for construction of lncRNA-mRNA co-expression networks. The techniques of gene ontology and Kyoto Encyclopedia of Genes and Genomes pathways were applied. It was suggested that these differentially expressed genes were involved in the interaction between the host and IBDV. Loc107051710 was found to have potential antiviral effects. RT-qPCR and western blot were applied and revealed that loc107051710 was required for induction of IRF8, type I IFN, STAT, and ISG expression, and its knockdown promoted IBDV replication. By fluorescence in situ hybridization, it was found that loc107051710 was translocated from the nucleus to the cytoplasm after infection with IBDV. Overall, loc107051710 promoted the production of IFN-α and IFN-β by regulating IRF8, thereby promoting the antiviral activity of ISGs.
DOI: 10.6084/m9.figshare.13534271.v1
title: Additional file 1 of Differential expression profiles of long noncoding RNAs and mRNAs in human bone marrow mesenchymal stem cells after exposure to a high dosage of dexamethasone

description: Additional file 1.
DOI: 10.6084/m9.figshare.13534274
title: Additional file 2 of Differential expression profiles of long noncoding RNAs and mRNAs in human bone marrow mesenchymal stem cells after exposure to a high dosage of dexamethasone

description: Additional file 2.
DOI: 10.6084/m9.figshare.13534277
title: Additional file 3 of Differential expression profiles of long noncoding RNAs and mRNAs in human bone marrow mesenchymal stem cells after exposure to a high dosage of dexamethasone

description: Additional file 3.
DOI: 10.6084/m9.figshare.13534277.v1
title: Additional file 3 of Differential expression profiles of long noncoding RNAs and mRNAs in human bone marrow mesenchymal stem cells after exposure to a high dosage of dexamethasone

description: Additional file 3.
DOI: 10.6084/m9.figshare.13534271
title: Additional file 1 of Differential expression profiles of long noncoding RNAs and mRNAs in human bone marrow mesenchymal stem cells after exposure to a high dosage of dexamethasone

description: Additional file 1.
DOI: 10.6084/m9.figshare.13534274.v1
title: Additional file 2 of Differential expression profiles of long noncoding RNAs and mRNAs in human bone marrow mesenchymal stem cells after exposure to a high dosage of dexamethasone

description: Additional file 2.
DOI: 10.21227/h8tj-q992
title: Experimental Data: Finger Scanning Speed and Heart Rate Counting

description: Finger Scanning Experiments: Participants conducted experiments while seated and wearing an eye mask to eliminate visual information. They were instructed to horizontally scan the surface back-and-forth eight times with one of their fingers to assess surface roughness. The finger's motion was optically captured at a frame rate of 60 fps. Scanning speed was determined by measuring finger positions at each frame and dividing them by the frame length. Image analysis was performed using OpenCV, where the finger outline was extracted from the video. The analysis comprised three steps: 1) Grayscale conversion of the video, 2) Binarization of the video (extracting only skin-colored parts), and 3) Utilizing the center of the x-coordinate and y-coordinate of the contour extracted in step 2 as the finger's center (indicated by the star in Fig. 3), tracking the center point of the finger. Throughout the 8 back-and-forth motions, we anticipated that finger scanning motion would converge toward a pattern associated with the surface features. We investigated the average finger speed during the 8th scan and examined the change in scanning speed across the repeated back-and-forth motions. Participants randomly traced eight tactile samples, and three trials were conducted for each tactile sample. This resulted in a total of 24 trials for each participant.Heart Rate Counting: Participants, while seated and wearing an eye mask, were instructed to count the number of their heartbeats without relying on external cues and verbally report it. The task was conducted in three intervals for each participant: 15, 30, and 45 s. The correct number of heartbeats was recorded using a wearable device (Fitbit Inspire2, Fitbit Inc., Delaware, US). The difference between the reported number and the correct number was divided by the correct heart rate, and the result was subtracted from 1, providing a metric to assess the accuracy of interoception. A more accurate interoception yields a value closer to 1.
DOI: 10.6084/m9.figshare.16680088
title: Additional file 1 of Comprehensive analyses of glycolysis-related lncRNAs for ovarian cancer patients

description: Additional file 1: Table S1. The enriched 62 GO BP and 33 KEGG pathways based on 116 GRGs.
DOI: 10.6084/m9.figshare.16680088.v1
title: Additional file 1 of Comprehensive analyses of glycolysis-related lncRNAs for ovarian cancer patients

description: Additional file 1: Table S1. The enriched 62 GO BP and 33 KEGG pathways based on 116 GRGs.
DOI: 10.6084/m9.figshare.16680094
title: Additional file 2 of Comprehensive analyses of glycolysis-related lncRNAs for ovarian cancer patients

description: Additional file 2: Table S2. A total of 66 pathways exhibited significant differences between the two risk subgroups.