cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21780250
title: m<sup>6</sup>A RNA methylation regulators predict prognosis and indicate characteristics of tumour microenvironment infiltration in acute myeloid leukaemia

description: Patients with acute myeloid leukaemia (AML) have poor prognoses and low overall survival (OS) rates owing to its heterogeneity and the complexity of its tumour microenvironment (TME). N6-methyladenosine (m<sup>6</sup>A) modification plays a key role in the initiation and progression of haematopoietic malignancies. However, the underlying function of m<sup>6</sup>A regulators in AML remains elusive. This study thoroughly analysed the m<sup>6</sup>A modification features of 177 AML patients based on 22 m<sup>6</sup>A regulators. Utilizing unsupervised clustering, we determined three distinct m<sup>6</sup>A modification patterns related to different biological functions, TME cell-infiltrating characteristics and clinical outcomes. Additionally, a risk score was constructed based on six m<sup>6</sup>A regulators-associated prognostic signatures and was validated as an independent and valuable prognostic factor for AML. Patients with a low-risk score exhibited better survival than those with a high-risk score. Many m<sup>6</sup>A regulators were aberrantly expressed in AML, among which <i>METTL14, YTHDC2, ZC3H13</i> and <i>RBM15</i> were observed to be associated with the OS of AML. In addition, these four m<sup>6</sup>A regulators were found to be noticeably related to the immune checkpoint inhibitor (ICI) treatments. Finally, we verified the expression levels of these four m<sup>6</sup>A regulators in AML and healthy samples and three groups of AML patients with different risk categories. Collectively, our study indicates that the m<sup>6</sup>A modification pattern is involved in TME immune-infiltrating characteristics and prognosis in AML. A better understanding of the m<sup>6</sup>A modification pattern will help enhance our knowledge of the molecular mechanisms of AML and develop potential prognosis prediction indicators and more effective immunotherapeutic strategies.
DOI: 10.6084/m9.figshare.21780250.v1
title: m<sup>6</sup>A RNA methylation regulators predict prognosis and indicate characteristics of tumour microenvironment infiltration in acute myeloid leukaemia

description: Patients with acute myeloid leukaemia (AML) have poor prognoses and low overall survival (OS) rates owing to its heterogeneity and the complexity of its tumour microenvironment (TME). N6-methyladenosine (m<sup>6</sup>A) modification plays a key role in the initiation and progression of haematopoietic malignancies. However, the underlying function of m<sup>6</sup>A regulators in AML remains elusive. This study thoroughly analysed the m<sup>6</sup>A modification features of 177 AML patients based on 22 m<sup>6</sup>A regulators. Utilizing unsupervised clustering, we determined three distinct m<sup>6</sup>A modification patterns related to different biological functions, TME cell-infiltrating characteristics and clinical outcomes. Additionally, a risk score was constructed based on six m<sup>6</sup>A regulators-associated prognostic signatures and was validated as an independent and valuable prognostic factor for AML. Patients with a low-risk score exhibited better survival than those with a high-risk score. Many m<sup>6</sup>A regulators were aberrantly expressed in AML, among which <i>METTL14, YTHDC2, ZC3H13</i> and <i>RBM15</i> were observed to be associated with the OS of AML. In addition, these four m<sup>6</sup>A regulators were found to be noticeably related to the immune checkpoint inhibitor (ICI) treatments. Finally, we verified the expression levels of these four m<sup>6</sup>A regulators in AML and healthy samples and three groups of AML patients with different risk categories. Collectively, our study indicates that the m<sup>6</sup>A modification pattern is involved in TME immune-infiltrating characteristics and prognosis in AML. A better understanding of the m<sup>6</sup>A modification pattern will help enhance our knowledge of the molecular mechanisms of AML and develop potential prognosis prediction indicators and more effective immunotherapeutic strategies.
DOI: 10.6084/m9.figshare.19159081.v1
title: Additional file 2 of Genome-wide association study of serum tumor markers in Southern Chinese Han population

description: Additional file 2: Supplemental Figure 2. A map of the SNPs associated with each serum tumor marker on different chromosomes. (A) AFP; (B) CA50; (C) CA125; (D) CA153; (E) CA19-9; (F) CEA; (G) f-PSA; (H) SCC-Ag.
DOI: 10.6084/m9.figshare.19159128
title: Additional file 2 of A novel immune-related lncRNA pair signature for prognostic prediction and immune response evaluation in gastric cancer: a bioinformatics and biological validation study

description: Additional file 2: Table S2. The results of the univariate Cox proportional hazards regression model.
DOI: 10.6084/m9.figshare.7624496.v1
title: MicroRNA414c affects salt tolerance of cotton by regulating reactive oxygen species metabolism under salinity stress

description: Salinity stress is a major abiotic stress affecting the productivity and fiber quality of cotton. Although reactive oxygen species (ROS) play critical roles in plant stress responses, their complex molecular regulatory mechanism under salinity stress is largely unknown in cotton, especially microRNA (miRNA)-mediated regulation of superoxide dismutase gene expression. Here, we report that a cotton iron superoxide dismutase gene <i>GhFSD1</i> and the cotton miRNA ghr-miR414c work together in response to salinity stress. The miRNA ghr-miR414c targets the coding sequence region of <i>GhFSD1</i>, inhibiting expression of transcripts of this antioxidase gene, which represents the first line of defense against stress-induced ROS. Expression of <i>GhFSD1</i> was induced by salinity stress. Under salinity stress, ghr-miR414c showed expression patterns opposite to those of <i>GhFSD1</i>. Ectopic expression of <i>GhFSD1</i> in <i>Arabidopsis</i> conferred salinity stress tolerance by improving primary root growth and biomass, whereas <i>Arabidopsis</i> constitutively expressing ghr-miR414c showed hypersensitivity to salinity stress. Silencing <i>GhFSD1</i> in cotton caused an excessive hypersensitive phenotype to salinity stress, whereas overexpressing miR414c decreased the expression of <i>GhFSD1</i> and increased sensitivity to salinity stress, yielding a phenotype similar to that of <i>GhFSD1</i>-silenced cotton. Taken together, our results demonstrated that ghr-miR414c was involved in regulation of plant response to salinity stress by targeting <i>GhFSD1</i> transcripts. This study provides a new strategy and method for plant breeding in order to improve plant salinity tolerance.
DOI: 10.6084/m9.figshare.8148896
title: Additional file 1: of Hydrogen-rich saline promotes microglia M2 polarization and complement-mediated synapse loss to restore behavioral deficits following hypoxia-ischemic in neonatal mice via AMPK activation

description: Reagent and PCR primers in the text. (ZIP 83 kb)
DOI: 10.6084/m9.figshare.16625359
title: Additional file 6 of Systematic analysis of the relationship between ovarian cancer prognosis and alternative splicing

description: Additional file 6: Table 6. Risk score of AD events in ovarian cancer patients.
DOI: 10.6084/m9.figshare.9722999
title: MOESM1 of Kidney injury in response to crystallization of calcium oxalate leads to rearrangement of the intrarenal T cell receptor delta immune repertoire

description: Additional file 1. Comparison of TRDV and TRDJ usage.
DOI: 10.6084/m9.figshare.9722999.v1
title: MOESM1 of Kidney injury in response to crystallization of calcium oxalate leads to rearrangement of the intrarenal T cell receptor delta immune repertoire

description: Additional file 1. Comparison of TRDV and TRDJ usage.
DOI: 10.6084/m9.figshare.9723005
title: MOESM2 of Kidney injury in response to crystallization of calcium oxalate leads to rearrangement of the intrarenal T cell receptor delta immune repertoire

description: Additional file 2. Comparison of V–J and V–D–J usage.
DOI: 10.6084/m9.figshare.9723005.v1
title: MOESM2 of Kidney injury in response to crystallization of calcium oxalate leads to rearrangement of the intrarenal T cell receptor delta immune repertoire

description: Additional file 2. Comparison of V–J and V–D–J usage.
DOI: 10.6084/m9.figshare.9723008
title: MOESM3 of Kidney injury in response to crystallization of calcium oxalate leads to rearrangement of the intrarenal T cell receptor delta immune repertoire

description: Additional file 3.Â Comparison of CDR3 AA usage.
DOI: 10.6084/m9.figshare.9723008.v1
title: MOESM3 of Kidney injury in response to crystallization of calcium oxalate leads to rearrangement of the intrarenal T cell receptor delta immune repertoire

description: Additional file 3.Â Comparison of CDR3 AA usage.
DOI: 10.6084/m9.figshare.25226258
title: R script for summary statistics and structural equation modelling

description: R script used with accompanying data frame 'plot_character' that is within the project to calculate summary statistics and structural equation modelling.
DOI: 10.6084/m9.figshare.7101584.v1
title: Laboratory study of dynamic mechanical characteristic of granite subjected to confining pressure and cyclic blast loading

description: Abstract To investigate the deformation characteristic of deep rock under cyclic blasting, the static-dynamic loading experimental equipment was set up. The dynamic strain gauges and high-speed (HS) camera were adopted to obtain strain field and the crack propagation of rock under confining pressure of 0 MPa, 5 MPa and 10 MPa. Under the one-time loading from cylindrical charge, the cracks in crushed zone were generated by shear and tensile failure. Circumference compressive stress is formed around borehole by confining pressure, and it reduces the circumference tensile failure by blast loading. The number of radial cracks and broken radius reduce with confining pressure increase. The reflected stress wave drives the existing fissures further developing. When specimens subjected to cyclic loading from PETN Cord, the rock is controlled by elastic deformation and no damage appeared after the first loading. With the cycle-index increase, the accumulation of plastic strain is observably when the strain exceeds the elastic limit strength of rock. The cumulative damage is nonlinear increased under cyclic loadings. The existing flaws or radial cracks run through specimen when the cumulative damage exceeds the material's yield strength.
DOI: 10.6084/m9.figshare.9723062
title: Additional file 10: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Details of the co-expression networks. (XLSX 551 kb)
DOI: 10.6084/m9.figshare.9723062.v1
title: Additional file 10: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Details of the co-expression networks. (XLSX 551 kb)
DOI: 10.6084/m9.figshare.9723080
title: Additional file 1: of Development of high-throughput genotyping method of all 18 HR HPV based on the MALDI-TOF MS platform and compared with the Roche Cobas 4800 HPV assay using clinical specimens

description: Table S1. The sequences of the 18 HR HPV L1 regions. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.9723080.v1
title: Additional file 1: of Development of high-throughput genotyping method of all 18 HR HPV based on the MALDI-TOF MS platform and compared with the Roche Cobas 4800 HPV assay using clinical specimens

description: Table S1. The sequences of the 18 HR HPV L1 regions. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.9723083
title: Additional file 1: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Details of lncRNAs. (XLSX 275 kb)
DOI: 10.6084/m9.figshare.9723083.v1
title: Additional file 1: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Details of lncRNAs. (XLSX 275 kb)
DOI: 10.6084/m9.figshare.19158996
title: Additional file 2 of iSuc-ChiDT: a computational method for identifying succinylation sites using statistical difference table encoding and the chi-square decision table classifier

description: Additional file 2: Table S2. This table shows 137 rules generated based on Tr_data, and lists the number of positive and negative training samples conforming to each rule.
DOI: 10.6084/m9.figshare.9723095
title: Additional file 2: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Cis- and Trans-interaction betweenÂ lncRNAs and mRNAs. (XLSX 20120 kb)
DOI: 10.6084/m9.figshare.9723095.v1
title: Additional file 2: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Cis- and Trans-interaction betweenÂ lncRNAs and mRNAs. (XLSX 20120 kb)
DOI: 10.6084/m9.figshare.16625365.v1
title: Additional file 8 of Systematic analysis of the relationship between ovarian cancer prognosis and alternative splicing

description: Additional file 8: Table 8. Risk score of AP events in ovarian cancer patients.
DOI: 10.6084/m9.figshare.9723104
title: Additional file 3: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: The GO terms of co-located target genes. (XLS 34 kb)
DOI: 10.6084/m9.figshare.9723104.v1
title: Additional file 3: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: The GO terms of co-located target genes. (XLS 34 kb)
DOI: 10.6084/m9.figshare.9723110
title: Additional file 4: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Top 20 enriched KEGG pathways of co-located target genes. (XLS 33 kb)
DOI: 10.6084/m9.figshare.9723110.v1
title: Additional file 4: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Top 20 enriched KEGG pathways of co-located target genes. (XLS 33 kb)
DOI: 10.6084/m9.figshare.9723113
title: Additional file 5: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Enriched cis-target genes in plant hormone signal transduction and Carotenoid biosynthesis. (XLS 191 kb)
DOI: 10.6084/m9.figshare.9723113.v1
title: Additional file 5: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Enriched cis-target genes in plant hormone signal transduction and Carotenoid biosynthesis. (XLS 191 kb)
DOI: 10.6084/m9.figshare.9197540.v1
title: Age, composition and tectonic implications of late Ordovician-early Silurian igneous rocks of the Loel Volcanic Belt, NW Laos

description: Volcanic rocks preserved in the Houay kham area, Loei Fold Belt are important components of the giant Paleo-Tethyan igneous belt. These magmatic rocks, previously mapped as Triassic-Jurassic in age, are composed of dacitic tuff, brecciated rhyolite tuff and a small number of dioritic dikes. In this study, LA-ICP-MS zircon U-Pb dating results show that brecciated rhyolite tuff, dacitic tuff, and dioritic dyke samples have ages of 419.8 ± 1.6 Ma, 449.6 ± 2.6 Ma and 417 ± 4.9 Ma. These are the first documented Late Ordovician to Late Silurian volcanic rocks in the Loei Volcanic Belt or in Southeast Asia. Geochemical analyses of these rocks show that all are calc-alkali to high K, formed in a subduction-related, back-arc basin and are intermediate-acid igneous rocks. Dacitic and brecciated rhyolite tuff samples originated from partial melting of maﬁc crust with medium to strong crustal contamination and weak to medium fractional crystallization. Dioritic dyke samples originated from simultaneous partial melting of gabbroic and metasedimentary rocks with weak to no crustal contamination or fractional crystallization. In the early Ordovician the eastern branch of the Rheic ocean opened and the Indochina terrane drifted away from NE Gondwana and subsequently an Ordovician–Silurian Palaeo-Tethyan Ocean opened.
DOI: 10.6084/m9.figshare.9723116
title: Additional file 6: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: GO termsÂ of co-expressed genes. (XLS 2482 kb)
DOI: 10.6084/m9.figshare.9723116.v1
title: Additional file 6: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: GO termsÂ of co-expressed genes. (XLS 2482 kb)
DOI: 10.6084/m9.figshare.9723125
title: Additional file 7: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Top 20 enriched KEGG pathways of co-expressedÂ target genes. (XLS 63 kb)
DOI: 10.6084/m9.figshare.9723125.v1
title: Additional file 7: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Top 20 enriched KEGG pathways of co-expressedÂ target genes. (XLS 63 kb)
DOI: 10.6084/m9.figshare.9723131
title: Additional file 8: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Gene ID of the genes were discussed. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.9723131.v1
title: Additional file 8: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: Gene ID of the genes were discussed. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.9723137
title: Additional file 9: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: The intersection betweenÂ co-location and co-expression groups. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.9723137.v1
title: Additional file 9: of Genome-wide identification and characterization of long non-coding RNAs involved in fruit ripening and the climacteric in Cucumis melo

description: The intersection betweenÂ co-location and co-expression groups. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.16625323.v1
title: Additional file 16 of Systematic analysis of the relationship between ovarian cancer prognosis and alternative splicing

description: Additional file 16: Table 16. Risk score of RI events in ovarian cancer patients.
DOI: 10.6084/m9.figshare.19159039
title: Additional file 2 of Methyltransferase like 7B is a potential therapeutic target for reversing EGFR-TKIs resistance in lung adenocarcinoma

description: Additional file 2: Table S2. The differential metabolites in PC9 cells stably transfected with FLAG-NC (PC9-NC) or FLAG-METTL7B (PC9-7B).
DOI: 10.6084/m9.figshare.9723179
title: Additional file 1: of Relationship between alterations of urinary microbiota and cultured negative lower urinary tract symptoms in female type 2 diabetes patients

description: Table S1. Differences of urinary microbiota between groups at genus level based on Metastats algorithm (XLSX 12 kb)
DOI: 10.6084/m9.figshare.9723179.v1
title: Additional file 1: of Relationship between alterations of urinary microbiota and cultured negative lower urinary tract symptoms in female type 2 diabetes patients

description: Table S1. Differences of urinary microbiota between groups at genus level based on Metastats algorithm (XLSX 12 kb)
DOI: 10.6084/m9.figshare.19681912
title: Additional file 1 of Cyclin D1 and PRAME expression in distinguishing melanoma in situ from benign melanocytic proliferation of the nail unit

description: Additional file 1: Supplementary Appendix 1. Clinical and histopathological data for all cases included.
DOI: 10.6084/m9.figshare.19159039.v1
title: Additional file 2 of Methyltransferase like 7B is a potential therapeutic target for reversing EGFR-TKIs resistance in lung adenocarcinoma

description: Additional file 2: Table S2. The differential metabolites in PC9 cells stably transfected with FLAG-NC (PC9-NC) or FLAG-METTL7B (PC9-7B).
DOI: 10.6084/m9.figshare.19159252
title: Additional file 2 of Somatic mutational profiles and germline polygenic risk scores in human cancer

description: Additional file 2 : Table S2. SNPs used for calculating germline PRS, Table S3. PRS validation results, Table S4. Full association results of somatic mutations and germline PRS, Table S5. Association results without adjusting for age at cancer diagnosis, Table S6. Association results adjusting for tumor stage, Table S7. Association results adjusting for hypermutable status for colorectal and endometrial cancer, Table S8. Association results adjusting for pathogenic variant carrier status, Table S9. Association results adjusting for tumor stage, hypermutable status for colorectal and endometrial cancer, and pathogenic variant carrier status. Table S10. Meta-analysis results of the somatic mutations and germline PRS associations across cancers.
DOI: 10.6084/m9.figshare.7624496
title: MicroRNA414c affects salt tolerance of cotton by regulating reactive oxygen species metabolism under salinity stress

description: Salinity stress is a major abiotic stress affecting the productivity and fiber quality of cotton. Although reactive oxygen species (ROS) play critical roles in plant stress responses, their complex molecular regulatory mechanism under salinity stress is largely unknown in cotton, especially microRNA (miRNA)-mediated regulation of superoxide dismutase gene expression. Here, we report that a cotton iron superoxide dismutase gene <i>GhFSD1</i> and the cotton miRNA ghr-miR414c work together in response to salinity stress. The miRNA ghr-miR414c targets the coding sequence region of <i>GhFSD1</i>, inhibiting expression of transcripts of this antioxidase gene, which represents the first line of defense against stress-induced ROS. Expression of <i>GhFSD1</i> was induced by salinity stress. Under salinity stress, ghr-miR414c showed expression patterns opposite to those of <i>GhFSD1</i>. Ectopic expression of <i>GhFSD1</i> in <i>Arabidopsis</i> conferred salinity stress tolerance by improving primary root growth and biomass, whereas <i>Arabidopsis</i> constitutively expressing ghr-miR414c showed hypersensitivity to salinity stress. Silencing <i>GhFSD1</i> in cotton caused an excessive hypersensitive phenotype to salinity stress, whereas overexpressing miR414c decreased the expression of <i>GhFSD1</i> and increased sensitivity to salinity stress, yielding a phenotype similar to that of <i>GhFSD1</i>-silenced cotton. Taken together, our results demonstrated that ghr-miR414c was involved in regulation of plant response to salinity stress by targeting <i>GhFSD1</i> transcripts. This study provides a new strategy and method for plant breeding in order to improve plant salinity tolerance.
DOI: 10.6084/m9.figshare.19159042.v1
title: Additional file 3 of Methyltransferase like 7B is a potential therapeutic target for reversing EGFR-TKIs resistance in lung adenocarcinoma

description: Additional file 3: Table S3. KEGG pathway of differential metabolites in PC9 cells stably transfected with PC9-NC or PC9- METTL7B.