cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6847148.v2
title: Electronic Supplementary Information for 5'-(CGA)n sequence-assisted pH controlled assembly of supramolecular DNA nanostructure from 5′-(CGA)<i><sub>n</sub></i> sequence-assisted pH-controlled assembly of supramolecular DNA nanostructure.

description: Electronic Supplementary Information for 5'-(CGA)n sequence-assisted pH controlled assembly of supramolecular DNA nanostructure
DOI: 10.6084/m9.figshare.8945153
title: Aqueous two-phase system for the extraction of amygdalin from the debitterized water of apricot kernels

description: Aqueous two-phase system (ATPS) is regarded as an effective and eco-friendly technique to extract some bioactive compounds. In order to promote the added value and reduce the discharge in the industrial processing of apricot kernels, the aqueous two-phase extraction conditions were optimized with the evaluation of the distribution coefficient (K), ratio of volume (R) and extraction yield (Y) to obtain a higher extraction of amygdalin from the debitterizing water concentrate (DWC) in this paper. The results indicate that the optimal conditions were as follows: 30% (w/w) ethanol and 20% (w/w) ammonium sulfate of the ATPS, at 35°C and pH of 7. Under these conditions, the highest extraction yield was 90.37% and the purity could be increased by more than two times. In a word, the ATPS can be considered as an effective method to recycle the amygdalin from the DWC in the apricot kernels processing.
DOI: 10.6084/m9.figshare.6848024.v1
title: MOESM1 of Activated gastric cancer-associated fibroblasts contribute to the malignant phenotype and 5-FU resistance via paracrine action in gastric cancer

description: Additional file 1. Information data of the cases enrolled in this study. This file includes the clinicopathological information of cases enrolled in this study.
DOI: 10.6084/m9.figshare.6848063.v1
title: Additional file 5: of Antennal transcriptome analysis of the chemosensory gene families in Carposina sasakii (Lepidoptera: Carposinidae)

description: BLASTx annotation against the NCBI non-redundant protein database for putative olfactory genes. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.13662669
title: Additional file 2 of Uncovering the genetic mechanisms regulating panicle architecture in rice with GPWAS and GWAS

description: Additional file 2: Table S1. The sample list and structure information of 406 accessions. Table S2. Significant genes detected using GPWAS and the phenotypes selected for each gene model. Table S3. The QTLs associated with TSNP, GNP, EGNP, PBN, PL, and PN with four different methods. Table S4. List of genes located in the LD block for TSNP, GNP, EGNP, PBN, PL, and PN. Table S5. Overlapped genes related to TSNP, GNP, EGNP, PBN, PN, and PL using GPWAS and GWAS methods. Table S6. Distribution of four haplotypes in subgroups. Table S7. Annotation of all SNPs located in the overlapped genes using SnpEff software. Table S8. Promoter elements anslysis of gene Os01g0140100.
DOI: 10.6084/m9.figshare.16807706
title: Additional file 5 of PbLAC4-like, activated by PbMYB26, related to the degradation of anthocyanin during color fading in pear

description: Additional file 5: Table S1. The GenBank accessions of related proteins.
DOI: 10.6084/m9.figshare.16807706.v1
title: Additional file 5 of PbLAC4-like, activated by PbMYB26, related to the degradation of anthocyanin during color fading in pear

description: Additional file 5: Table S1. The GenBank accessions of related proteins.
DOI: 10.6084/m9.figshare.19429849.v1
title: Curcumin Suppresses TGF-β2-Induced Proliferation, Migration, and Invasion in Lens Epithelial Cells by Targeting KCNQ1OT1/miR-377-3p/COL1A2 Axis in Posterior Capsule Opacification

description: <b>Purpose:</b> Posterior capsule opacification (PCO) is a common complication after cataract surgery, which can lead to secondary loss of vision. Curcumin has been reported to play a suppressive role in PCO progression, and the potential molecular mechanism was explored in this study. <b>Methods:</b> Cell viability and proliferation were analyzed by 3-(4,5-Dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay and 5-Ethynyl-2’-deoxyuridine (EdU) assay. Transwell assay and wound healing assay were performed to assess cell invasion and migration abilities. Western blot assay and reverse transcription-quantitative polymerase chain reaction (RT-qPCR) were conducted to measure the expression of proteins and RNAs. Dual-luciferase reporter assay and RNA immunoprecipitation (RIP) assay were conducted to confirm the interaction between microRNA-377-3p (miR-377-3p) and KCNQ1 opposite strand/antisense transcript 1 (KCNQ1OT1) or collagen type I alpha 2 chain (COL1A2). <b>Results:</b> Curcumin dose-dependently alleviated transforming growth factor-β2 (TGF-β2)-induced proliferation, migration, and invasion in SRA01/04 cells. KCNQ1OT1 was up-regulated in PCO patients and TGF-β2-induced SRA01/04 cells. Curcumin-induced protective effects in TGF-β2-induced SRA01/04 cells were largely overturned by KCNQ1OT1 overexpression. KCNQ1OT1 directly interacted with miR-377-3p and negatively regulated its expression. miR-377-3p silencing overturned Curcumin-mediated protective effects in SRA01/04 cells upon TGF-β2 treatment. miR-377-3p directly interacted with the 3’ untranslated region (3’UTR) of COL1A2. COL1A2 overexpression largely counteracted KCNQ1OT1 silencing-induced effects in TGF-β2-stimulated SRA01/04 cells. KCNQ1OT1 could up-regulate COL1A2 expression by sponging miR-377-3p in SRA01/04 cells. <b>Conclusion:</b> In conclusion, Curcumin suppressed TGF-β2-induced malignant changes in lens epithelial cells by targeting KCNQ1OT1/miR-377-3p/COL1A2 axis.
DOI: 10.6084/m9.figshare.16807709
title: Additional file 6 of PbLAC4-like, activated by PbMYB26, related to the degradation of anthocyanin during color fading in pear

description: Additional file 6: Table S2. Sequences of primers used for qRT-PCR analysis.
DOI: 10.6084/m9.figshare.13662711
title: Additional file 1 of Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma

description: Additional file 1. The disease-free survival of six immune cells.
DOI: 10.6084/m9.figshare.13662711.v1
title: Additional file 1 of Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma

description: Additional file 1. The disease-free survival of six immune cells.
DOI: 10.6084/m9.figshare.13662714
title: Additional file 2 of Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma

description: Additional file 2. Clinical features of uterine corpus endometrial carcinoma patients in disease-free survival.
DOI: 10.6084/m9.figshare.13662717
title: Additional file 3 of Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma

description: Additional file 3. Related genes in immune cells.
DOI: 10.6084/m9.figshare.13662723
title: Additional file 5 of Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma

description: Additional file 5. Clinical features of uterine corpus endometrial carcinoma patients in overall survival.
DOI: 10.6084/m9.figshare.13662729
title: Additional file 7 of Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma

description: Additional file 7. The mRNA data of uterine corpus endometrial carcinoma samples.
DOI: 10.6084/m9.figshare.13662729.v1
title: Additional file 7 of Tumor mutation burden in connection with immune-related survival in uterine corpus endometrial carcinoma

description: Additional file 7. The mRNA data of uterine corpus endometrial carcinoma samples.
DOI: 10.6084/m9.figshare.9993968
title: Additional file 1: of Long non-coding RNAs identify a subset of luminal muscle-invasive bladder cancer patients with favorable prognosis

description: Table S1: Final list of gene features and coefficients for the genomic classifier. Table S2: Concordance of our generated lncRNA clusters and the lncRNA clusters from the TCGA 2017 publication, in the TCGA cohort. Table S3: Intersection of the lncRNA-based consensus clusters and the TCGA2017 mRNA subtypes for the NAC and TCGA cohorts. Table S4: Mutation status enrichment for LPL-C3 vs other in TCGA cohort. Table S5: Fusion event enrichment for LPL-C3 vs other in TCGA cohort. Table S6: Intersection of the GC FGFR3+ tumors and the TCGA2017 mRNA subtypes for the NAC, TCGA, UTSW and PCC cohorts. Table S7: Multivariable analyses in the NAC, TCGA and UTSW cohorts. Table S8: Intersection of the GC FGFR3+ tumors and the Consensus Classifier mRNA subtypes for the NAC, TCGA, UTSW and PCC cohorts. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.9993968.v1
title: Additional file 1: of Long non-coding RNAs identify a subset of luminal muscle-invasive bladder cancer patients with favorable prognosis

description: Table S1: Final list of gene features and coefficients for the genomic classifier. Table S2: Concordance of our generated lncRNA clusters and the lncRNA clusters from the TCGA 2017 publication, in the TCGA cohort. Table S3: Intersection of the lncRNA-based consensus clusters and the TCGA2017 mRNA subtypes for the NAC and TCGA cohorts. Table S4: Mutation status enrichment for LPL-C3 vs other in TCGA cohort. Table S5: Fusion event enrichment for LPL-C3 vs other in TCGA cohort. Table S6: Intersection of the GC FGFR3+ tumors and the TCGA2017 mRNA subtypes for the NAC, TCGA, UTSW and PCC cohorts. Table S7: Multivariable analyses in the NAC, TCGA and UTSW cohorts. Table S8: Intersection of the GC FGFR3+ tumors and the Consensus Classifier mRNA subtypes for the NAC, TCGA, UTSW and PCC cohorts. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.9994001
title: MOESM11 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 11. Table showing the list of public RNA-seq data used in this study.
DOI: 10.6084/m9.figshare.9994001.v1
title: MOESM11 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 11. Table showing the list of public RNA-seq data used in this study.
DOI: 10.6084/m9.figshare.9994007
title: MOESM12 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 12. Table showing the sequence information of identified NRS.
DOI: 10.6084/m9.figshare.9994007.v1
title: MOESM12 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 12. Table showing the sequence information of identified NRS.
DOI: 10.6084/m9.figshare.9994010
title: MOESM1 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 1. Table showing the information of 31 de novo assemblies used in this study.
DOI: 10.6084/m9.figshare.9994010.v1
title: MOESM1 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 1. Table showing the information of 31 de novo assemblies used in this study.
DOI: 10.6084/m9.figshare.9994025
title: MOESM4 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 4. Table showing the presence of NRS in 31 human de novo assemblies and in four great ape assemblies.
DOI: 10.6084/m9.figshare.9994034
title: MOESM5 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 5. Table showing the information of NRS which are anchored to the gap region of hg38.
DOI: 10.6084/m9.figshare.9994034.v1
title: MOESM5 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 5. Table showing the information of NRS which are anchored to the gap region of hg38.
DOI: 10.6084/m9.figshare.9994040
title: MOESM6 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 6. Table showing the information of the non-private NRS.
DOI: 10.6084/m9.figshare.9994040.v1
title: MOESM6 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 6. Table showing the information of the non-private NRS.
DOI: 10.6084/m9.figshare.9994052
title: MOESM8 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 8. Table showing the information of the precisely placed NRS.
DOI: 10.6084/m9.figshare.9994052.v1
title: MOESM8 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 8. Table showing the information of the precisely placed NRS.
DOI: 10.6084/m9.figshare.9994058
title: MOESM9 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 9. Table showing the list of alternate alleles with transcriptional potential.
DOI: 10.6084/m9.figshare.9994058.v1
title: MOESM9 of Recovery of non-reference sequences missing from the human reference genome

description: Additional file 9. Table showing the list of alternate alleles with transcriptional potential.
DOI: 10.6084/m9.figshare.9994076
title: MOESM1 of Elective nodal irradiation versus involved-field irradiation in patients with esophageal cancer receiving neoadjuvant chemoradiotherapy: a network meta-analysis

description: Additional file 1: Figure S1. Assessment of risk of bias. A: Methodological quality graph: authors’ judgment about each methodological quality item presented as percentages across all included studies; B: Methodological quality summary: authors’ judgment about each methodological quality item for each included study, “+” low risk of bias; “?” unclear risk of bias; “-” high risk of bias. Figure S2. Comparison-adjusted funnel plots of publication bias test for overall survival. nCRTS, neoadjuvant chemoradiotherapy plus surgery; nCTS, neoadjuvant chemotherapy plus surgery; S, surgery; ENI, elective nodal irradiation; IFI, involved-field irradiation. Figure S3. Inconsistency evaluation by node-splitting analyses. (a) overall survival; (b) locoregional recurrence; (c) distant metastases; (d) R0 resection; (e) post-operative mortality. nCRTS, neoadjuvant chemoradiotherapy plus surgery; nCTS, neoadjuvant chemotherapy plus surgery; S, surgery; ENI, elective nodal irradiation; IFI, involved-field irradiation. Table S1. PRISMA NMA Checklist. Table S2. Search strategy. Table S3. Details of radiation fields.
DOI: 10.6084/m9.figshare.13139906
title: Supporting data for Tradeoff of CO2 and CH4 emissions from global peatlands under water-table drawdown

description: data_revision1.csv collects flux measurements from water table
manipulation experiments listed in Reference.doc.
site_chara_filled_revision1.csv collects site characteristics, soil, climate,
management and topographic information. data_in_shape_permu_revision1.r is the
script that combines previous two csv datasets and reorganize it into high-low
water table pair for each flux. data_in_shape_permu_revision1.r generate files
XXXX_ final_data_revision1.csv that are used in analysing and plotting.
pred_nee_future_map_rev2_full.py and pred_ch4_future_map_rev2_long_full.py
generate gridded global predictions of future CO<sub>2</sub> and CH<sub>4</sub> in
response to water table drawdown through machine learning models (random
forest) trained by the collected water table manipulation experimental
datasets. Code in the uncertainty folder combines bootstrap resampling and
ensemble predictions to generate 95% confidence intervals. For
the response of CO<sub>2</sub>, the code randomly sampled 80% of observation
samples to build one random forest model. This random model was then used to
make future predictions with different combinations of predictor datasets. This
bootstrap resampling, random forest model building and future prediction was
repeated 200 times. In total, the code generated 25200 (200 x 21 CO<sub>2,initial</sub>
datasets x 2 WTD<sub>initial</sub> datasets x 3 Climate datasets) ensemble
members and estimated the 95% interval as the indicator of prediction
uncertainty. For the response of CH4, the code generated 8400 ensemble members through
200 times bootstrap resampling, 7 CH<sub>4,initial</sub> datasets, 2 WTD<sub>initial</sub>
datasets and 3 climate datasets. Scripts in the “Figures” folder are used to generate
figures in the main text and the supplementary information with, FigureS
referring to figures in supplementary information. 

delta_rcp85_figshare.nc stores means and the 95% confidence intervals of
future CO<sub>2</sub> and CH<sub>4 </sub>emissions in response to
water table drawdown across the globe under RCP8.5 climate conditions, in unit
of mg CO<sub>2</sub>-eq m<sup>-2</sup> h<sup>-1</sup>. delta_rcp26_figshare.nc
stores means and the 95% confidence intervals of the response under RCP2.6
conditions. We assume CH<sub>4</sub> has a global warming potential that
is 25 times CO<sub>2</sub> over a 100-year time horizon.

Note for site_chara_filled_revision1.csv

WT: &gt;0 below soil surface; &lt;0 above soil surface

Flux: positive sign = release gas to the atmosphere

Manipulation length: s: within 1 year; m, 1-10 years; l, &gt;10 years

Arctic: North of 66.5N; Boreal, 50-66.5; Temperate, 30-50; tropical, -30
– 30

CH<sub>4</sub>, unit, µg m<sup>-2</sup>h<sup>-1</sup>

CO<sub>2</sub>, unit, mg m<sup>-2</sup>h<sup>-1</sup>

 <br>
DOI: 10.6084/m9.figshare.16809943
title: SMRT sequencing data of Shewanella piezotolerans WP3NR/Dnd

description: SMRT sequencing was carried out on a PacBio RS II instrument (Pacific Biosciences, Menlo Park, CA, USA). A total of 886,401,450 bp of sequencing data were produced, with an average read length of 5,897 bp. The genome was then assembled using HGAP 3.0 with the default parameters in SMRT Analysis Suite. Base modification analysis was performed using the base modification detection workflow of SMRT Analysis v1.3, and the PT modifications in the whole genome were identified according to calculations of the interpulse duration ratio.
DOI: 10.6084/m9.figshare.16810090
title: Dataset for Study on Scientometrics.xlsx

description: We use journal articles published by
<i>Scientometrics</i> in 2016-2020 as the data source. Through the
analysis of the data set usage records of scientometrics research, the frequency ranking of the usage of datasets on respectively social network, patents, academic literature, and encyclopedia are listed, so as to provide a reference for the selection of data sets for scientometrics research.
DOI: 10.6084/m9.figshare.13662735.v1
title: Additional file 1 of Coding and non-coding RNA interactions reveal immune-related pathways in peripheral blood mononuclear cells derived from patients with proliferative vitreoretinopathy

description: Additional file 1. The differential expressed gene.
DOI: 10.6084/m9.figshare.13662735
title: Additional file 1 of Coding and non-coding RNA interactions reveal immune-related pathways in peripheral blood mononuclear cells derived from patients with proliferative vitreoretinopathy

description: Additional file 1. The differential expressed gene.
DOI: 10.6084/m9.figshare.12091557
title: Non-invasive Instrument-Based Tests for Quantifying Anterior Chamber Flare in Uveitis: A Systematic Review

description: <b>Purpose</b>: Anterior chamber (AC) flare is a key sign for anterior uveitis. New instrument-based techniques for measuring AC flare can offer automation and objectivity. This review aims to identify objective instrument-based measures for AC flare. <b>Methods</b>: In this systematic review, we identified studies reporting correlation between instrument-based tests versus clinician AC flare grading, and/or aqueous protein concentration, as well as test reliability. <b>Results</b>: Four index tests were identified in 11 studies: laser-flare photometry (LFP), optical coherence tomography, ocular flare analysis meter (OFAM) and the double-pass technique. The correlation between LFP and clinician grading was 0.40–0.93 and 0.87–0.94 for LFP and protein concentration. The double-pass technique showed no correlation with clinician grading and insufficient information was available for OFAM. <b>Conclusion</b>: LFP shows moderate to strong correlation with clinician grading and aqueous protein concentration. LFP could be a superior reference test compared to clinician AC flare grading for validating new index tests.
DOI: 10.6084/m9.figshare.16810174
title: 社交类数据集.xlsx

description: This dataset uses journal articles published by <i>Scientometrics</i> in 2016-2020 as the data source. Through the analysis of the data set usage records of scientometrics research, the frequency ranking of the usage of datasets on social network is listed, so as to provide a reference for the selection of data sets for scientometrics research
DOI: 10.6084/m9.figshare.13140210
title: FTO demethylates m6A modifications in HOXB13 mRNA and promotes endometrial cancer metastasis by activating the WNT signalling pathway

description: Although many studies have confirmed the relationship between obesity and endometrial cancer (EC), the molecular mechanism between obesity and EC progression has not been elucidated. Overexpression of fat mass and the obesity associated protein FTO leads to weight gain, although recently it has been discovered that FTO can serve as a demethylase which erases N6-methyladenosine (m6A) modification and regulates the metabolization of mRNAs. In this study, we found high expression of FTO in metastatic EC and that this action promote both metastasis and invasion in vivo and in vitro. Mechanistically, FTO can catalyse demethylation modification in 3ʹUTR region of HOXB13 mRNA, thereby abolishing m6A modification recognition with the YTHDF2 protein. Decreasing HOXB13 mRNA decay and increasing HOXB13 protein expression was accompanied by WNT signalling pathway activation and the expression of downstream proteins, leading to tumour metastasis and invasion. We also found the WNT signalling pathway inhibitor ICG-001 can block HOXB13 gene-induced tumour metastasis, therefore ICG-001 may be a promising molecular intervention. This study provides insight into the relationship between obesity and the pathogenesis of endometrial cancer while highlighting future areas of research.
DOI: 10.6084/m9.figshare.20480385
title: Improving CH<sub>4</sub>/O<sub>2</sub> energy ratio of meat processing wastewater treatment systems through micro-sieving

description: Micro-sieving is an effective way to prevent organic pollutants enter the main biological process and reduce aeration intensity and sludge production. However, few researchers quantified the effect of micro-sieving on meat processing wastewater treatment. The current study developed Excel-based models to compare the energy consumption and production of historical, conventional and innovative systems. Historical and conventional systems employ activated sludge (AS), nitrification, and denitrification as the main biological processes. Innovative systems are designed by using up-flow anaerobic sludge blanket (UASB) and partial nitrification/Anammox (PN/A) as the main treatment processes. Results show that the CH<sub>4</sub>/O<sub>2</sub> energy ratios of the innovative treatment system are as high as 10 times of the historical and conventional systems. Therefore, innovative system can achieve electrical self-sufficiency. Micro-sieving reduces 5% of aeration demand. Furthermore, the impact of micro-sieving on the innovative treatment systemis assessed by cost-benefit analysis. System with micro-sieving has the shortest payback time of 2.1 years and reduces cost of the innovative treatment system. An excel-based model was developed to quantify the impact of micro-sieving on energy and cost of innovative treatment system, thereby providing a valuable reference for future sustainable engineering design of meat processing wastewater treatment.