cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5066/p9krd45s
title: Tabular geochronologic, geochemical, and isotopic data from igneous rocks in the Lane Mountain area, San Bernardino County, California

description: This dataset provides geochronologic, geochemical, and isotopic data for selected igneous rock samples collected in the Lane Mountain area about 20 kilometers northeast of Barstow, California. Uranium-lead (U-Pb) zircon geochronologic and whole-rock geochemical data were obtained for 62 samples of which 28 are from Permian to Triassic plutonic rocks and dikes, 24 are from Late Jurassic plutonic rocks, 6 are from Late Cretaceous plutonic rocks and dikes, and 4 are from Miocene volcanic rocks,&amp;nbsp; Rubidium-strontium (Rb-Sr) isotopic data were obtained for 8 of the Permian to Triassic samples, 9 of the Late Jurassic samples, and 4 of the Late Cretaceous samples.&amp;nbsp; Oxygen isotope data were obtained for 2 Permian to Triassic samples, 6 Late Jurassic samples, and 2 Late Cretaceous samples. The dataset consists of six tables in csv (comma separated values) format: (1) sample localities and lithology; (2) SHRIMP-RG (Sensitive High-Resolution Ion Microprobe-Reverse Geometry) U-Pb zircon geochronologic data; (3) sample ages derived from the geochronologic data; (4) whole-rock geochemical data determined by ICP-AES-MS (Inductively Coupled Plasma Atomic Emission Spectroscopy-Mass Spectrometry) and WDXRF (Wavelength Dispersive X-ray Fluorescence); (5) whole-rock Rb-Sr isotopic data measured on a solid source mass spectrometer, along with calculations of the original 87Sr/86Sr isotopic ratios based on the measured data; and (6) whole-rock oxygen isotope determinations of delta 18O.
DOI: 10.6084/m9.figshare.12998439
title: An efficient real representation method for least squares problem of the quaternion constrained matrix equation <i>AXB</i> + <i>CY D</i> = <i>E</i>

description: Let ηHQk×k and ηAQk×k represent the sets of all k×k <i>η</i>-Hermitian quaternion matrices and <i>η</i>-anti-Hermitian quaternion matrices, respectively. On the basis of the real representation matrix of a quaternion matrix and its particular structure, we convert the least squares problem of the quaternion matrix equation <i>AXB</i> + <i>CY D</i> = <i>E</i> over X∈ηHQn×n,Y∈ηAQk×k into the corresponding problem of the real matrix equation over free variables, and then we establish its unique minimal norm least squares solution. Our resulting expressions are expressed only by real matrices, and the algorithm only includes real operations. Consequently, they are very simple and convenient. Compared with the existing method [S.F. Yuan, Q.W. Wang, and X. Zhang, <i>Least-squares problem for the quaternion matrix equation AXB + CYD = E over different constrained matrices</i>, Int. J. Comput. Math. 90 (2013), pp. 565–576], the final two examples show that our method is more efficient and superior.
DOI: 10.6084/m9.figshare.12998439.v1
title: An efficient real representation method for least squares problem of the quaternion constrained matrix equation <i>AXB</i> + <i>CY D</i> = <i>E</i>

description: Let ηHQk×k and ηAQk×k represent the sets of all k×k <i>η</i>-Hermitian quaternion matrices and <i>η</i>-anti-Hermitian quaternion matrices, respectively. On the basis of the real representation matrix of a quaternion matrix and its particular structure, we convert the least squares problem of the quaternion matrix equation <i>AXB</i> + <i>CY D</i> = <i>E</i> over X∈ηHQn×n,Y∈ηAQk×k into the corresponding problem of the real matrix equation over free variables, and then we establish its unique minimal norm least squares solution. Our resulting expressions are expressed only by real matrices, and the algorithm only includes real operations. Consequently, they are very simple and convenient. Compared with the existing method [S.F. Yuan, Q.W. Wang, and X. Zhang, <i>Least-squares problem for the quaternion matrix equation AXB + CYD = E over different constrained matrices</i>, Int. J. Comput. Math. 90 (2013), pp. 565–576], the final two examples show that our method is more efficient and superior.
DOI: 10.7910/dvn/fhkkzs
title: PRK

description: PRK (Photorefractive Keratectomy) is a type of refractive laser eye surgery used to correct myopia (nearsightedness), hyperopia (farsightedness), and astigmatism by reshaping the cornea using an excimer laser, allowing light entering the eye to be properly focused onto the retina for clearer vision. Unlike LASIK, PRK involves the removal of the cornea's surface layer before the reshaping procedure, offering an alternative for patients with thin corneas or other issues that make them unsuitable for LASIK, though it generally involves a longer recovery period and more discomfort during the healing process.
DOI: 10.6084/m9.figshare.24782556
title: Datazip for "Reciprocating RNA Polymerase batters through roadblocks"

description: Data and codes for replicating results in "Reciprocating RNA Polymerase batters through roadblocks" by Qian et al.
DOI: 10.6084/m9.figshare.24782556.v4
title: Datazip for "Reciprocating RNA Polymerase batters through roadblocks"

description: Data and codes for replicating results in "Reciprocating RNA Polymerase batters through roadblocks" by Qian et al.
DOI: 10.6084/m9.figshare.19289950
title: Additional file 5 of MTHFR 677TT is associated with decreased number of embryos and cumulative live birth rate in patients undergoing GnRHa short protocol: a retrospective study

description: Additional file 5: Supplementary Table. 4 The original non-matched data.
DOI: 10.6084/m9.figshare.24782556.v3
title: Datazip for "Reciprocating RNA Polymerase batters through roadblocks"

description: Data and codes for replicating results in "Reciprocating RNA Polymerase batters through roadblocks" by Qian et al.
DOI: 10.6084/m9.figshare.19289950.v1
title: Additional file 5 of MTHFR 677TT is associated with decreased number of embryos and cumulative live birth rate in patients undergoing GnRHa short protocol: a retrospective study

description: Additional file 5: Supplementary Table. 4 The original non-matched data.
DOI: 10.25934/pr00006870.1
title: Available IPD datapackage for study 'A Randomized, Double-blind, Event-driven, Placebo-controlled, Multicenter Study of the Effects of Canagliflozin on Renal and Cardiovascular Outcomes in Subjects With Type 2 Diabetes Mellitus and Diabetic Nephropathy'

description: The goal of this study is to assess whether canagliflozin has a renal and vascular protective effect in reducing the progression of renal impairment relative to placebo in participants with type 2 diabetes mellitus (T2DM), Stage 2 or 3 chronic kidney disease (CKD) and macroalbuminuria, who are receiving standard of care including a maximum tolerated labeled daily dose of an angiotensin-converting enzyme inhibitor (ACEi) or angiotensin receptor blocker (ARB).
DOI: 10.6084/m9.figshare.7755671
title: Additional file 1: Table S1. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: Differentially-expressed genes from LUAD patients and normal patients in GSE32863, GSE7670 and TCGA-LUAD datasets, respectively. (XLSX 2088 kb)
DOI: 10.6084/m9.figshare.7755671.v1
title: Additional file 1: Table S1. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: Differentially-expressed genes from LUAD patients and normal patients in GSE32863, GSE7670 and TCGA-LUAD datasets, respectively. (XLSX 2088 kb)
DOI: 10.6084/m9.figshare.7755674
title: Additional file 2: Table S2. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: Differentially-expressed genes in lung adenocarcinoma tissues against normal tissues among TCGA, GSE32863 and GSE7670 datasets. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.7755674.v1
title: Additional file 2: Table S2. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: Differentially-expressed genes in lung adenocarcinoma tissues against normal tissues among TCGA, GSE32863 and GSE7670 datasets. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.7755680
title: Additional file 3: Table S3. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: KEGG and GO analysis related to biological progresses, molecular functions and biological cellular components. (XLSX 127 kb)
DOI: 10.6084/m9.figshare.7755680.v1
title: Additional file 3: Table S3. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: KEGG and GO analysis related to biological progresses, molecular functions and biological cellular components. (XLSX 127 kb)
DOI: 10.6084/m9.figshare.7755695
title: Additional file 5: Table S4. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: Differentially-expressed genes between BM+ and BM- samples identified by DESeq2 (log2Fold Change&gt;2). (XLSX 87 kb)
DOI: 10.6084/m9.figshare.7755695.v1
title: Additional file 5: Table S4. of LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway

description: Differentially-expressed genes between BM+ and BM- samples identified by DESeq2 (log2Fold Change&gt;2). (XLSX 87 kb)
DOI: 10.6084/m9.figshare.12998583
title: Comprehensive analysis of the translatome reveals the relationship between the translational and transcriptional control in high fat diet-induced liver steatosis

description: Translational regulation plays a critical role in gene expression. However, there are few genome-wide studies on translational regulation in non-alcoholic fatty liver disease (NAFLD), which is a severe non-communicable epidemic worldwide. In this study, we performed RNC-mRNA (mRNAs bound to ribosome-nascent chain complex) sequencing and mRNA sequencing to probe the translation status of high-fat-diet (HFD) induced mouse fatty liver. Generally, in the HFD group compared to the control group, changes of translation ratios and changes in mRNA abundance had a negative correlation. The relative abundance of RNC-mRNAs and mRNAs were positively correlated, yet the former changed more slowly than the latter. However, the rate of change became more balanced when it came to the livers of mice that were fed the HFD plus lycopene, an antioxidant. This indicated relatively independent roles of translational modulation and transcriptional regulation. Furthermore, many genes were differentially regulated at the transcriptional or translational levels, suggesting a new screening strategy for functional genes. In conclusion, our analysis revealed the different and correlated role of translational control with transcriptional regulation in the HFD-induced mouse fatty liver relative to the control, which indicates critical roles of translational control for liver steatosis; thus, adding a new dimension towards a better understanding and improvement of treatment for NAFLD.
DOI: 10.6084/m9.figshare.12998583.v1
title: Comprehensive analysis of the translatome reveals the relationship between the translational and transcriptional control in high fat diet-induced liver steatosis

description: Translational regulation plays a critical role in gene expression. However, there are few genome-wide studies on translational regulation in non-alcoholic fatty liver disease (NAFLD), which is a severe non-communicable epidemic worldwide. In this study, we performed RNC-mRNA (mRNAs bound to ribosome-nascent chain complex) sequencing and mRNA sequencing to probe the translation status of high-fat-diet (HFD) induced mouse fatty liver. Generally, in the HFD group compared to the control group, changes of translation ratios and changes in mRNA abundance had a negative correlation. The relative abundance of RNC-mRNAs and mRNAs were positively correlated, yet the former changed more slowly than the latter. However, the rate of change became more balanced when it came to the livers of mice that were fed the HFD plus lycopene, an antioxidant. This indicated relatively independent roles of translational modulation and transcriptional regulation. Furthermore, many genes were differentially regulated at the transcriptional or translational levels, suggesting a new screening strategy for functional genes. In conclusion, our analysis revealed the different and correlated role of translational control with transcriptional regulation in the HFD-induced mouse fatty liver relative to the control, which indicates critical roles of translational control for liver steatosis; thus, adding a new dimension towards a better understanding and improvement of treatment for NAFLD.
DOI: 10.5281/zenodo.10697830
title: Dataset related to article: CEREBROSPINAL FLUID LIPOPROTEINS INHIBIT Α-SYNUCLEIN AGGREGATION BY INTERACTING WITH OLIGOMERIC SPECIES IN SEED AMPLIFICATION ASSAYS

description: figure 2

Figure 7 C-D-E-F-G-H
DOI: 10.5281/zenodo.10697831
title: Dataset related to article: CEREBROSPINAL FLUID LIPOPROTEINS INHIBIT Α-SYNUCLEIN AGGREGATION BY INTERACTING WITH OLIGOMERIC SPECIES IN SEED AMPLIFICATION ASSAYS

description: figure 2

Figure 7 C-D-E-F-G-H
DOI: 10.6084/m9.figshare.8280008
title: Additional file 1: of Genome-wide scan reveals genetic divergence and diverse adaptive selection in ChineseÂ local cattle

description: Table S1. The full names, associated abbreviation for each breeds and additional information on the locations of the sampling areas for eight populations. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.8280008.v1
title: Additional file 1: of Genome-wide scan reveals genetic divergence and diverse adaptive selection in ChineseÂ local cattle

description: Table S1. The full names, associated abbreviation for each breeds and additional information on the locations of the sampling areas for eight populations. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.19290058
title: Additional file 3 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 3: Supplementary Table 1. Tables containing the taxonomic composition of the metagenomic and metatranscriptomic data, as defined by VIRGO. Taxa relative abundances have been corrected for gene length.
DOI: 10.6084/m9.figshare.19290058.v1
title: Additional file 3 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 3: Supplementary Table 1. Tables containing the taxonomic composition of the metagenomic and metatranscriptomic data, as defined by VIRGO. Taxa relative abundances have been corrected for gene length.
DOI: 10.6084/m9.figshare.8280014
title: Additional file 2: of Genome-wide scan reveals genetic divergence and diverse adaptive selection in ChineseÂ local cattle

description: Table S2. Candidate selective signature and genes under positive Selection using di approach for four groups including North, Northwest, South and Southwest. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.8280014.v1
title: Additional file 2: of Genome-wide scan reveals genetic divergence and diverse adaptive selection in ChineseÂ local cattle

description: Table S2. Candidate selective signature and genes under positive Selection using di approach for four groups including North, Northwest, South and Southwest. (XLSX 31 kb)
DOI: 10.6084/m9.figshare.7755728
title: MOESM1 of Enhancing co-translational folding of heterologous protein by deleting non-essential ribosomal proteins in Pichia pastoris

description: Additional file 1: Table S1. Predicted ribosomal protein genes of P. pastoris GS115.
DOI: 10.6084/m9.figshare.7755728.v1
title: MOESM1 of Enhancing co-translational folding of heterologous protein by deleting non-essential ribosomal proteins in Pichia pastoris

description: Additional file 1: Table S1. Predicted ribosomal protein genes of P. pastoris GS115.
DOI: 10.6084/m9.figshare.19290064
title: Additional file 4 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 4: Supplementary Table 2. Tables containing results of differential expression analysis at the level of KEGG orthologs.
DOI: 10.6084/m9.figshare.19290064.v1
title: Additional file 4 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 4: Supplementary Table 2. Tables containing results of differential expression analysis at the level of KEGG orthologs.
DOI: 10.6084/m9.figshare.8280020
title: Additional file 3: of Genome-wide scan reveals genetic divergence and diverse adaptive selection in ChineseÂ local cattle

description: Table S3. Candidate selective signature and genes under positive Selection using iHS approach for eight populations including YHC, MGC, CDM, PWC, LSC, ZTC, WSC and NDC. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.8280020.v1
title: Additional file 3: of Genome-wide scan reveals genetic divergence and diverse adaptive selection in ChineseÂ local cattle

description: Table S3. Candidate selective signature and genes under positive Selection using iHS approach for eight populations including YHC, MGC, CDM, PWC, LSC, ZTC, WSC and NDC. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.19290070
title: Additional file 5 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 5: Supplementary Table 3. Tables containing non-zero factor loadings for taxa and VOGs identified in sCCA analysis of L. crispatus, L. iners, Gardnerella gene expression.
DOI: 10.6084/m9.figshare.19290070.v1
title: Additional file 5 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 5: Supplementary Table 3. Tables containing non-zero factor loadings for taxa and VOGs identified in sCCA analysis of L. crispatus, L. iners, Gardnerella gene expression.
DOI: 10.6084/m9.figshare.9852887
title: Targeted next-generation DNA sequencing identifies Notch signaling pathway mutation as a predictor of radiation response

description: <b>Purpose:</b> Identifying the association between somatic mutations and the radiation response of tumor is essential for understanding the mechanisms and practicing personalized radiotherapy. The present study aimed to discover specific genes or pathways that are associated with radiation response using targeted next-generation DNA sequencing. <b>Material and methods:</b> Fifty-five patients with various solid tumors whose specimen were sequenced using institutional panel which includes 148 cancer-related genes and received radiotherapy for a measurable tumor were analyzed. Patients with irradiated tumors in complete or partial remission for more than 6 months were defined as responders. Association between mutations including pathogenic single nucleotide variants and insertions/deletions in the 148 genes and 39 molecular pathways and radiation response was investigated. <b>Results:</b> Analyzing 17 responders and 38 non-responders, biologically effective dose (BED), but not concurrent chemotherapy, was associated with radiation response. No single gene correlated with radiation response. Mutations in Notch signaling pathway were associated with radiosensitivity after correction for multiple comparison (adjusted <i>p</i> = .094). When BED and Notch signaling pathway mutation were tested with logistic regression, both variables were associated with radiation response. <b>Conclusions:</b> Our results suggest that somatic mutations in Notch signaling pathway may be related to sensitivity to radiation, although these results should be validated in a larger and more homogeneous cohort.
DOI: 10.6084/m9.figshare.9852887.v1
title: Targeted next-generation DNA sequencing identifies Notch signaling pathway mutation as a predictor of radiation response

description: <b>Purpose:</b> Identifying the association between somatic mutations and the radiation response of tumor is essential for understanding the mechanisms and practicing personalized radiotherapy. The present study aimed to discover specific genes or pathways that are associated with radiation response using targeted next-generation DNA sequencing. <b>Material and methods:</b> Fifty-five patients with various solid tumors whose specimen were sequenced using institutional panel which includes 148 cancer-related genes and received radiotherapy for a measurable tumor were analyzed. Patients with irradiated tumors in complete or partial remission for more than 6 months were defined as responders. Association between mutations including pathogenic single nucleotide variants and insertions/deletions in the 148 genes and 39 molecular pathways and radiation response was investigated. <b>Results:</b> Analyzing 17 responders and 38 non-responders, biologically effective dose (BED), but not concurrent chemotherapy, was associated with radiation response. No single gene correlated with radiation response. Mutations in Notch signaling pathway were associated with radiosensitivity after correction for multiple comparison (adjusted <i>p</i> = .094). When BED and Notch signaling pathway mutation were tested with logistic regression, both variables were associated with radiation response. <b>Conclusions:</b> Our results suggest that somatic mutations in Notch signaling pathway may be related to sensitivity to radiation, although these results should be validated in a larger and more homogeneous cohort.
DOI: 10.6084/m9.figshare.19290076
title: Additional file 6 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 6: Supplementary Table 4. Post-processing sequence read counts and percent of those reads which mapped to the VIRGO database for the metagenomic and metatranscriptomic datasets.
DOI: 10.6084/m9.figshare.19290076.v1
title: Additional file 6 of Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data

description: Additional file 6: Supplementary Table 4. Post-processing sequence read counts and percent of those reads which mapped to the VIRGO database for the metagenomic and metatranscriptomic datasets.
DOI: 10.6084/m9.figshare.17192927
title: One PMP22/MPZ and three MFN2/GDAP1 concomitant variants occurred in a cohort of 189 Chinese Charcot-Marie-Tooth families

description: We firstly utilized the application of
MLPA (P033 kit, MRC Holland, Netherlands) for
the detection of <i>PMP22</i> duplication in CMT1 patients. Inherited peripheral
neuropathy multi-gene panel sequencing
was further applied in CMT1 patients who failed to achieve molecular diagnosis
and in CMT2 patients.
DOI: 10.5066/p9zlkcd2
title: Monthly inorganic nitrogen atmospheric wet deposition estimates for the conterminous United States, 1999 through 2020

description: This data release provides estimates of monthly wet atmospheric deposition of total inorganic nitrogen (TIN)--the summation of nitrate (NO3) and ammonium (NH4) ions--for the conterminous United States from 1999 through 2020 in units of kilograms nitrogen per square kilometer per month with spatial reference ESPG 4326. The spatial resolution of the gridded data provided in this release is approximately 5 km. The source data used to provide wet deposition estimates include monthly atmospheric concentration data interpolated between National Atmospheric Deposition Program (NADP, 2022) observation stations and monthly precipitation estimates from the National Oceanic and Atmospheric Administration's ClimGrid data (NOAA, 2022). See process steps for details.
DOI: 10.6084/m9.figshare.7755755
title: MOESM4 of Enhancing co-translational folding of heterologous protein by deleting non-essential ribosomal proteins in Pichia pastoris

description: Additional file 4: Table S6. mRNA fold-change (log2) for chaperone genes. Table S7. RNC-mRNA fold-change (log2) for chaperone genes. P-values of differential expression were calculated using edgeR software.