cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20495866.v1
title: Additional file 3 of Diagnostic yield and clinical relevance of expanded genetic testing for cancer patients

description: Additional file 3: Table S3. Genes tested on MSK-IMPACT grouped based on their penetrance and inheritance type.
DOI: 10.25582/data.2022-09.2610398/2286194
title: Data for EMSL Project 51834 from September 2022
DOI: 10.25582/data.2021-11.2387406/2286195
title: Data for EMSL Project 51834 from November 2021
DOI: 10.6084/m9.figshare.14731974
title: Source data for "High thermoelectric figure of merit of porous Si nanowires from 300 to 700 K"

description: Data for Fig.2 and Fig.3 of the paper "High thermoelectric figure of merit of porous Si nanowires from 300 to 700 K".<br>Fig 2. Measured (a) effective thermal conductivity, κ<sub>eff</sub>, (b) effective electrical conductivity, σ<sub>eff</sub>, and (c) Seebeck coefficient, S, of various porous SiNWs as a function of temperature. For the legend, the first number represents SiNW porosity, the middle one is boron doping concentration (p) measured using secondary ion mass spectrometry (SIMS, see Methods), and the last number is SiNW diameter. Note κ<sub>eff</sub> and σ<sub>eff</sub> are extracted based on nanowire diameter without normalizing with porosity. (d) Calculated thermoelectric figure of merit ZT for the three samples with porosity = 46% and p = 2.2×10<sup>20</sup> cm<sup>-3</sup> (152 nm, 171 nm, 184 nm) with the highest ZT in this work, where the previously measured ZT results of single rough SiNW, thin SiNW array, polycrystalline Si nanotube mesh, holey Si, nanobulk Si and bulk Si (8.1×10<sup>19</sup> cm<sup>-3</sup> boron-doped) are plotted for comparison.<br>Fig 3. (a) Black square represents the ratio of porous SiNW κ (porosity = 46% and p = 2.2×10<sup>20</sup> cm<sup>-3</sup>, 171 nm) to that of optimally doped bulk Si (8.1×10<sup>19</sup> cm<sup>-3</sup> boron-doped) as a function of temperature. Green squares show the ratio of power factor of porous SiNW (porosity = 46% and p = 2.2×10<sup>20</sup> cm<sup>-3</sup>, 171 nm) to that of the optimally doped bulk Si (8.1×10<sup>19</sup> cm<sup>-3</sup> boron-doped). (b-d) Comparison between the measured temperature-dependent (b) κ, (c) σ, and (d) S with modeled results considering the effects of pore boundary scattering. Note that in panel (b) for the porosity = 46% and p = 2.2×10<sup>20</sup> cm<sup>-3</sup> sample, charge carriers make a non-negligible contribution to thermal transport, and the modeled κ is the sum of the calculated lattice thermal conductivity and electronic thermal conductivity, κ<sub>e</sub>, estimated using the Wiedemann–Franz law.
DOI: 10.6084/m9.figshare.7391945
title: Additional file 1: of Chi-miR-3031 regulates beta-casein via the PI3K/AKT-mTOR signaling pathway in goat mammary epithelial cells (GMECs)

description: Table S1. The up and down-regulated genes in the chi-miR-3031 mimics VS. negative control groups. (XLSX 46 kb)
DOI: 10.25582/data.2021-10.2368647/2286196
title: Data for EMSL Project 51834 from October 2021
DOI: 10.25582/data.2022-10.2623058/2286197
title: Data for EMSL Project 51834 from October 2022
DOI: 10.25582/data.2022-01.2417247/2286198
title: Data for EMSL Project 51834 from January 2022
DOI: 10.25582/data.2022-10.2621513/2286199
title: Data for EMSL Project 51834 from October 2022
DOI: 10.25582/data.2021-07.2287355/2286200
title: Data for EMSL Project 51834 from July 2021
DOI: 10.25582/data.2022-09.2612826/2286201
title: Data for EMSL Project 51834 from September 2022
DOI: 10.25582/data.2021-10.2369807/2286202
title: Data for EMSL Project 51834 from October 2021
DOI: 10.25582/data.2022-01.2417018/2286203
title: Data for EMSL Project 51834 from January 2022
DOI: 10.25582/data.2022-10.2620995/2286204
title: Data for EMSL Project 51834 from October 2022
DOI: 10.25582/data.2022-10.2620158/2286205
title: Data for EMSL Project 51834 from October 2022
DOI: 10.25582/data.2021-11.2389125/2286206
title: Data for EMSL Project 51834 from November 2021
DOI: 10.25582/data.2022-10.2619624/2286207
title: Data for EMSL Project 51834 from October 2022
DOI: 10.25582/data.2021-08.2305244/2286208
title: Data for EMSL Project 51834 from August 2021
DOI: 10.25582/data.2022-01.2417181/2286209
title: Data for EMSL Project 51834 from January 2022
DOI: 10.25582/data.2021-09.2318859/2286210
title: Data for EMSL Project 51834 from September 2021
DOI: 10.25582/data.2021-12.2411073/2286211
title: Data for EMSL Project 51834 from December 2021
DOI: 10.25582/data.2022-04.2479152/2286212
title: Data for EMSL Project 51834 from April 2022
DOI: 10.25582/data.2021-09.2327577/2286213
title: Data for EMSL Project 51834 from September 2021
DOI: 10.25582/data.2021-11.2388158/2286214
title: Data for EMSL Project 51834 from November 2021
DOI: 10.6084/m9.figshare.21546113
title: A potential novel inflammation biomarker for predicting the prognosis of decompensated liver cirrhosis

description: This study aimed to explore the prognostic value of the lymphocyte (LYM)-to-white blood cell (WBC) ratio (LWR) in patients with decompensated liver cirrhosis (DLC). This study was conducted by recruiting 214 patients with DLC with different aetiologies (development cohort). Receiver operating characteristic (ROC) curve analyses were used to assess the predictive accuracy of the LWR, and Youden’s index was used to determine the optimal cut-off values of the LWR based on the ROC curve. Next, patients were divided into high- and low-LWR groups according to the cut-off values. Multivariate logistic analyses were performed to determine the independent predictors for the 1-, 3- and 6-month mortality. Restricted cubic spline (RCS) was used to determine and visualize the association between LWR and the risk of death. We verified the predictive ability of LWR in the validation cohort of 139 patients. In the development cohort, there were 16 (7.5%), 22 (10.3%) and 30 patients (14.0%) who died at 1, 3 and 6 months, respectively. The LWR was significantly lower in non-survivors than in survivors and was an independent predictor of poor outcomes. The ROC analyses with the Delong test showed that the LWR had comparable predictive power with the Model for End-Stage Liver Disease (MELD) score, neutrophil-to-LYM ratio (NLR) and Chronic Liver Failure consortium score for acute decompensated (CLIF-C ADs). RCS showed a non-linear relationship between the LWR and the risk of death at 1 and 3 months, whereas a linear relationship was observed between the LWR and the risk of death at 6 months. We verified that the decreased LWR was an independent predictor of adverse outcomes at 3-, and 6-month follow-up endpoints in the validation cohort. Our findings indicate that a lower LWR is an independent factor for unfavourable outcomes and may serve as a potential novel prognostic predictor in patients with DLC.KEY MESSAGESThis study is the first report on the prognostic value of the lymphocyte (LYM)-to-white blood cell (WBC) ratio (LWR) in patients with decompensated liver cirrhosis (DLC).Decreased LWR is an independent factor for adverse outcomes in patients with DLC. This study is the first report on the prognostic value of the lymphocyte (LYM)-to-white blood cell (WBC) ratio (LWR) in patients with decompensated liver cirrhosis (DLC). Decreased LWR is an independent factor for adverse outcomes in patients with DLC.
DOI: 10.25582/data.2022-09.2607670/2286215
title: Data for EMSL Project 51834 from September 2022
DOI: 10.25582/data.2021-11.2380748/2286216
title: Data for EMSL Project 51834 from November 2021
DOI: 10.25582/data.2022-04.2479149/2286217
title: Data for EMSL Project 51834 from April 2022
DOI: 10.25582/data.2021-10.2361657/2286218
title: Data for EMSL Project 51834 from October 2021
DOI: 10.25582/data.2021-10.2370586/2286219
title: Data for EMSL Project 51834 from October 2021
DOI: 10.6084/m9.figshare.21545642
title: Additional file 5 of Integrated analysis to identify the AC005154.6/hsa-miR-29c-3p/CCNL2 axis as a novel prognostic biomarker associated with immune infiltration in prostate cancer

description: Additional file 5. Thirteen ceRNA networks correlated with patient survival.
DOI: 10.25582/data.2021-09.2327988/2286220
title: Data for EMSL Project 51834 from September 2021
DOI: 10.6084/m9.figshare.20497279.v1
title: Knockdown of GSG2 inhibits the development and progression of non-small cell lung cancer <i>in vitro</i> and <i>in vivo</i>

description: Lung cancer has been recognized as the most common malignant neoplasm of the respiratory system with extremely high morbidity, among which non-small cell lung cancer (NSCLC) accounts for the majority. Many published literatures have revealed the roles of GSG2 in the progression of ovarian cancer, bladder cancer and breast cancer. However, there were no reports on the relationship between GSG2 and NSCLC. Herein, GSG2 was identified as a potential tumor promoter in NSCLC development, whose abundant expression was observed in NSCLC tissues compared with adjacent nonmalignant tissues and statistically correlated with more advanced tumor stage, more malignant grade and higher risk of lymphatic metastasis. Subsequent <i>in vitro</i> loss-of-function experiments indicated that GSG2 depletion could arrest cell cycle and suppress cell proliferation and migration while enhancing cell apoptosis. At the same time, the suppressive effects of GSG2 depletion on NSCLC development were verified by <i>in vivo</i> experiments. In conclusion, the current study identified GSG2 as a tumor promoter in development and progression of NSCLC, which could work as a novel therapeutic target for NSCLC.
DOI: 10.6084/m9.figshare.21545976.v3
title: Referral criteria to palliative care for patients with Parkinson’s disease: a systematic review

description: This systematic review aimed to identify the referral criteria for palliative care in patients with Parkinson’s disease. We conducted an electronic search for publications on referral criteria for palliative care in patients with Parkinson’s disease in six electronic databases. The articles were thoroughly reviewed by two independent reviewers for inclusion using a predefined data extraction list. The referral criteria were thematically classified using a coding methodology. This systematic review included 36 publications. We identified 14 referral criteria themes. The most common referral indicators were functional decline (<i>n</i> = 11 [31%]), needs assessment tools (<i>n</i> = 11 [31%]), physical or emotional symptoms (<i>n</i> = 10[28%]), need for palliative care (<i>n</i> = 10 [28%]), decision support (<i>n</i> = 9 [25%]), advanced Parkinson’s disease (<i>n</i> = 7[19%]), and diagnosis of Parkinson’s disease (<i>n</i> = 7 [19%]). However, there was a lack of consensus on symptom assessment tools. In addition, there were no agreed cut-offs or defined time for palliative care referral for patients with Parkinson’s disease. The 14 themes identified in this systematic review were categorized into disease- and needs-based criteria. These themes show the wide range of referral timing and procedures. Further studies should be conducted to reveal standardized referral criteria. Despite evidence showing the benefits of palliative care in patients with Parkinson’s disease, there is a lack of consensus on when, how, and why patients with Parkinson’s disease should be referred for palliative care. This manuscript summarizes and evaluates the criteria taken into account when making a palliative care referral for patients with Parkinson’s disease. We identified 925 publications. However, only 36 publications were included in the final analysis. Furthermore, we identified 14 themes that were categorized into disease- and needs-based criteria. This systematic review emphasizes the wide range of referral timing and procedures. Moreover, there is a need for more research to reveal standardized referral criteria.
DOI: 10.25582/data.2022-09.2609831/2286221
title: Data for EMSL Project 51834 from September 2022
DOI: 10.6084/m9.figshare.21546113.v1
title: A potential novel inflammation biomarker for predicting the prognosis of decompensated liver cirrhosis

description: This study aimed to explore the prognostic value of the lymphocyte (LYM)-to-white blood cell (WBC) ratio (LWR) in patients with decompensated liver cirrhosis (DLC). This study was conducted by recruiting 214 patients with DLC with different aetiologies (development cohort). Receiver operating characteristic (ROC) curve analyses were used to assess the predictive accuracy of the LWR, and Youden’s index was used to determine the optimal cut-off values of the LWR based on the ROC curve. Next, patients were divided into high- and low-LWR groups according to the cut-off values. Multivariate logistic analyses were performed to determine the independent predictors for the 1-, 3- and 6-month mortality. Restricted cubic spline (RCS) was used to determine and visualize the association between LWR and the risk of death. We verified the predictive ability of LWR in the validation cohort of 139 patients. In the development cohort, there were 16 (7.5%), 22 (10.3%) and 30 patients (14.0%) who died at 1, 3 and 6 months, respectively. The LWR was significantly lower in non-survivors than in survivors and was an independent predictor of poor outcomes. The ROC analyses with the Delong test showed that the LWR had comparable predictive power with the Model for End-Stage Liver Disease (MELD) score, neutrophil-to-LYM ratio (NLR) and Chronic Liver Failure consortium score for acute decompensated (CLIF-C ADs). RCS showed a non-linear relationship between the LWR and the risk of death at 1 and 3 months, whereas a linear relationship was observed between the LWR and the risk of death at 6 months. We verified that the decreased LWR was an independent predictor of adverse outcomes at 3-, and 6-month follow-up endpoints in the validation cohort. Our findings indicate that a lower LWR is an independent factor for unfavourable outcomes and may serve as a potential novel prognostic predictor in patients with DLC.KEY MESSAGESThis study is the first report on the prognostic value of the lymphocyte (LYM)-to-white blood cell (WBC) ratio (LWR) in patients with decompensated liver cirrhosis (DLC).Decreased LWR is an independent factor for adverse outcomes in patients with DLC. This study is the first report on the prognostic value of the lymphocyte (LYM)-to-white blood cell (WBC) ratio (LWR) in patients with decompensated liver cirrhosis (DLC). Decreased LWR is an independent factor for adverse outcomes in patients with DLC.
DOI: 10.25582/data.2022-09.2606916/2286222
title: Data for EMSL Project 51834 from September 2022
DOI: 10.25582/data.2022-10.2621766/2286223
title: Data for EMSL Project 51834 from October 2022
DOI: 10.25582/data.2022-10.2622520/2286224
title: Data for EMSL Project 51834 from October 2022
DOI: 10.6084/m9.figshare.21545976.v2
title: Referral criteria to palliative care for patients with Parkinson’s disease: a systematic review

description: This systematic review aimed to identify the referral criteria for palliative care in patients with Parkinson’s disease. We conducted an electronic search for publications on referral criteria for palliative care in patients with Parkinson’s disease in six electronic databases. The articles were thoroughly reviewed by two independent reviewers for inclusion using a predefined data extraction list. The referral criteria were thematically classified using a coding methodology. This systematic review included 36 publications. We identified 14 referral criteria themes. The most common referral indicators were functional decline (<i>n</i> = 11 [31%]), needs assessment tools (<i>n</i> = 11 [31%]), physical or emotional symptoms (<i>n</i> = 10[28%]), need for palliative care (<i>n</i> = 10 [28%]), decision support (<i>n</i> = 9 [25%]), advanced Parkinson’s disease (<i>n</i> = 7[19%]), and diagnosis of Parkinson’s disease (<i>n</i> = 7 [19%]). However, there was a lack of consensus on symptom assessment tools. In addition, there were no agreed cut-offs or defined time for palliative care referral for patients with Parkinson’s disease. The 14 themes identified in this systematic review were categorized into disease- and needs-based criteria. These themes show the wide range of referral timing and procedures. Further studies should be conducted to reveal standardized referral criteria. Despite evidence showing the benefits of palliative care in patients with Parkinson’s disease, there is a lack of consensus on when, how, and why patients with Parkinson’s disease should be referred for palliative care. This manuscript summarizes and evaluates the criteria taken into account when making a palliative care referral for patients with Parkinson’s disease. We identified 925 publications. However, only 36 publications were included in the final analysis. Furthermore, we identified 14 themes that were categorized into disease- and needs-based criteria. This systematic review emphasizes the wide range of referral timing and procedures. Moreover, there is a need for more research to reveal standardized referral criteria.
DOI: 10.6084/m9.figshare.23118911.v1
title: Additional file 1 of Predictive effect of TCED-HFV grading and imaging biomarkers on anti-VEGF therapy in diabetic macular edema

description: Supplementary Material 1
DOI: 10.25582/data.2021-10.2353307/2286225
title: Data for EMSL Project 51834 from October 2021
DOI: 10.6084/m9.figshare.20495899
title: Additional file 1 of Identification of two new QTLs of maize (Zea mays L.) underlying kernel row number using the HNAU-NAM1 population

description: Additional file 1: Table S1. Phenotypic values of 13 parents of HNAU-NAM1 population. Table S2. Phenotype about the HNAU-NAM1 under four environments. Table S3. Detailed information about HNAU-NAM1. Table S4. Genetic map information for HNAU-NAM1 consisting of 12 RIL families. Table S5. JLM results for KRN in HNAU-NAM1. Table S6. SLM results for KRN in the 12 RIL families. Table S7. Candidate SNPs associated with KRN in HNAU-NAM1, as detected by GWAS analysis. Table S8. FPKM of five genes in different ear samples
DOI: 10.25582/data.2021-11.2388445/2286226
title: Data for EMSL Project 51834 from November 2021
DOI: 10.6084/m9.figshare.20495899.v1
title: Additional file 1 of Identification of two new QTLs of maize (Zea mays L.) underlying kernel row number using the HNAU-NAM1 population

description: Additional file 1: Table S1. Phenotypic values of 13 parents of HNAU-NAM1 population. Table S2. Phenotype about the HNAU-NAM1 under four environments. Table S3. Detailed information about HNAU-NAM1. Table S4. Genetic map information for HNAU-NAM1 consisting of 12 RIL families. Table S5. JLM results for KRN in HNAU-NAM1. Table S6. SLM results for KRN in the 12 RIL families. Table S7. Candidate SNPs associated with KRN in HNAU-NAM1, as detected by GWAS analysis. Table S8. FPKM of five genes in different ear samples
DOI: 10.25582/data.2022-10.2621523/2286227
title: Data for EMSL Project 51834 from October 2022
DOI: 10.6084/m9.figshare.21546089
title: METTL3-mediated long non-coding RNA MIR99AHG methylation targets miR-4660 to promote bone marrow mesenchymal stem cell osteogenic differentiation

description: Whether long non-coding RNA Mir-99a-Let-7c Cluster Host Gene (LncRNA MIR99AHG) is involved in osteoporosis (OP) remains vague, so we hereby center on its implication. Old C57BL/6J mice were injected with the silencing lentivirus of MIR99AHG and subjected to microCT analysis and immunohistochemistry on osteogenic cells. The osteogenic differentiation of bone marrow mesenchymal stem cells (BMSCs) with or without transfection was determined by alkaline phosphatase (ALP) and Alizarin Red S staining. Total N(6)-methyladenosine (m<sup>6</sup>A) on the bone marrow mesenchymal stem cells (BMSCs) was quantified. The potential methylation site and the complementary binding sites with candidate microRNA (miR) were predicted via bioinformatic analyses, with the latter being confirmed via dual-luciferase reporter, RNA immunoprecipitation and RNA pull-down assays. Quantitative real-time PCR and Western blot were used for quantification assays. MIR99AHG was decreased during the osteogenic differentiation of BMSCs, where increased Osterix (OSX), Collagen, Type I, Alpha 1 (Col1A1), Osteocalcin (OCN) and RUNX Family Transcription Factor 2 (RUNX2) as well as more color-stained areas were found. Also, silencing MIR99AHG relieved the OP in mice and reduced the loss of osteogenic cells. M<sup>6</sup>A methylation in undifferentiated BMSCs was low and MIR99AHG overexpression abolished the effects of overexpressed METTL3 on promoting osteogenic differentiation. MiR-4660, which was downregulated in BMSCs without differentiation but increased during osteogenic differentiation, could bind with MIR99AHG. Furthermore, miR-4660 promoted osteogenic differentiation and reversed the effects of overexpressed MIR99AHG. The present study demonstrated that METTL3-mediated LncRNA MIR99AHG methylation enhanced the osteogenic differentiation of BMSCs via targeting miR-4660.
DOI: 10.5281/zenodo.7226844
title: Energy of shallow tremors and moment of shallow very low frequency earthquakes in Hyuga-nada, southwest Japan

description: We estimated energies of shallow tremors detected by Yamashita et al. (2015) and Yamashita et al. (2021), and moments of shallow very low frequency earthquakes (VLFEs) detected by Asano et al. (2015) and those temporally correlated with shallow tremors detected by Yamashita et al. (2015) and Yamashita et al. (2021) in Hyuga-nada. We also evaluated scaled energies of shallow slow earthquakes in Hyuga-nada by the ratio of energy rate of tremors to moment rate of accompanying VLFEs.

The method of estimation of energies of tremors and moments of VLFEs is written in Baba et al. (2024  https://doi.org/10.1093/gji/ggae039). The content of each column is written in the first line of each file. The time is written in JST (UTC+9).

tremor_2013.txt: Energy of shallow tremors in 2013 detected by Yamashita et al. (2015) (https://doi.org/10.1126/science.aaa4242).tremor_2015.txt: Energy of shallow tremors in 2015 detected by Yamashita et al. (2021) (https://doi.org/10.1186/s40623-021-01533-x).VLFE_2010.txt: Moments of shallow VLFEs in 2010 detected by Asano et al. (2015) (https://doi.org/10.1002/2014GL062165).VLFE_2013.txt: Moments of shallow VLFEs correlated with shallow tremors in 2013 detected by Yamashita et al. (2015) (https://doi.org/10.1126/science.aaa4242) and scaled energy of slow earthquakes.VLFE_2015.txt: Moments of shallow VLFEs correlated with shallow tremors in 2015 detected by Yamashita et al. (2021) (https://doi.org/10.1186/s40623-021-01533-x) and scaled energy of slow earthquakes.(Version 2: site amplification factors of tremor energy estimation at the reference station N.TASF was changed to be set as 2)