cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10528582
title: Dataset and scripts for the manuscript "Evolution of the Antarctic Ice Sheet over the next three centuries from an ISMIP6 model ensemble"

description: Supporting data and code for manuscript "Evolution of the Antarctic Ice Sheet over the next three centuries from an ISMIP6 model ensemble" by Hélène Seroussi, Tyler Pelle, William H. Lipscomb, Ayako Abe-Ouchi, Torsten Albrecht, Jorge Alvarez-Solas, Xylar Asay-Davis, Jean-Baptiste Barre, C. J. Berends, Jorge A. Bernales, Javier Blasco, Justine Caillet, David M. Chandler, Violaine Coulon, Richard Cullather, Christophe Dumas, Benjamin K. Galton-Fenzi, Julius Garbe, Fabien7Gillet-Chaulet, Rupert Gladstone, Heiko Goelzer, Nicholas Golledge, Ralf Greve, G. Hilmar Gudmundsson, Holly Han, Trevor Hillebrand, Matthew J. Hoffman, Philippe Huybrechts, Nicolas Jourdain, Ann Kristin Klose, Petra Langebroek, Gunter R. Leguy, Daniel P. Lowry, Pierre Mathiot, MarisaMontoya, Mathieu Morlighem, Sophie Nowicki, Frank Pattyn, Antony J. Payne, Aurélien Quiquet, Alexander Robinson, Leopekka Saraste, Erika G. Simon, Sainan Sun, Jake P. Twarog, Luke D. Trusel, Benoit Urruty, Jonas Van Breedam, Roderik S. W. van de Wal, Yu Wang, Chen Zhao, Thomas Zwinger.

 

The script process_scalars.m contains the routines to calculate all scalars time series used in the analysis. The scripts script_figures.m and xxx.m contain the code to reproduce figures in the paper. 

The directory ComputedScalars contains all the scalar time series processed organized by experiments and by field calculated. It includes scalar values for the Antarctic continent, values for the West Antarctic Ice Sheet, East Antarctic Ice Sheet and Antarctic Peninsular, as well as values calculated by for the 18 Antarctic sectors.
DOI: 10.6084/m9.figshare.7020959
title: Additional file 1: of The c-Myc-regulated lncRNA NEAT1 and paraspeckles modulate imatinib-induced apoptosis in CML cells

description: Table S1. LncRNA gene expression level in CML and the healthy donor. (XLSX 43 kb)
DOI: 10.5281/zenodo.10654863
title: test
DOI: 10.6084/m9.figshare.13310263
title: Additional file 8 of The SAP function in pistil development was proved by two allelic mutations in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

description: Additional file 8: Table S7. Primers for BraA04g009730.3C coding sequences.
DOI: 10.6084/m9.figshare.13310263.v1
title: Additional file 8 of The SAP function in pistil development was proved by two allelic mutations in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

description: Additional file 8: Table S7. Primers for BraA04g009730.3C coding sequences.
DOI: 10.6084/m9.figshare.7020959.v1
title: Additional file 1: of The c-Myc-regulated lncRNA NEAT1 and paraspeckles modulate imatinib-induced apoptosis in CML cells

description: Table S1. LncRNA gene expression level in CML and the healthy donor. (XLSX 43 kb)
DOI: 10.6084/m9.figshare.7021022
title: Additional file 4: of The c-Myc-regulated lncRNA NEAT1 and paraspeckles modulate imatinib-induced apoptosis in CML cells

description: Table S2. Gene expression level in si-NC and si-SFPQ cells with or without IM treatment. (XLSX 1424 kb)
DOI: 10.6084/m9.figshare.13310257
title: Additional file 6 of The SAP function in pistil development was proved by two allelic mutations in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

description: Additional file 6: Table S5. Twenty most significantly enriched KEGG metabolic pathways.
DOI: 10.6084/m9.figshare.7021040
title: Additional file 5: of The c-Myc-regulated lncRNA NEAT1 and paraspeckles modulate imatinib-induced apoptosis in CML cells

description: Table S3. Pathway analysis of genes regulated by SFPQ upon IM treatment. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.12262064
title: Additional file 10 of Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency

description: Additional file 10 Table S10. The differentially expressed genes in the brown module.
DOI: 10.6084/m9.figshare.12262067.v1
title: Additional file 11 of Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency

description: Additional file 11 Table S11. The differentially expressed genes in the turquoise module.
DOI: 10.6084/m9.figshare.14885415.v1
title: rspa20210337supp5.txt from Optimization of a type of elastic metamaterial for broadband wave suppression

description: Data for optimization result by different design requirements in Figure 11 from “Optimization of a type of elastic metamaterial for broadband wave suppression”.
DOI: 10.6084/m9.figshare.14885421.v1
title: rspa20210337supp2.txt from Optimization of a type of elastic metamaterial for broadband wave suppression

description: Data for optimization result and corresponding numerical validation-transmissibility versus frequency in Figure 8 from “Optimization of a type of elastic metamaterial for broadband wave suppression”.
DOI: 10.6084/m9.figshare.14885424.v1
title: rspa20210337supp6.xlsx from Optimization of a type of elastic metamaterial for broadband wave suppression

description: Numerical data for steady responses of optimized metamaterial by different design requirements in Figure 12 from “Optimization of a type of elastic metamaterial for broadband wave suppression”.
DOI: 10.6084/m9.figshare.13310242.v1
title: Additional file 1 of The SAP function in pistil development was proved by two allelic mutations in Chinese cabbage (Brassica rapa L. ssp. pekinensis)

description: Additional file 1: Table S1. Summary of all expressed genes detected in the ‘FT’ and fsm1 mutant libraries.
DOI: 10.6084/m9.figshare.12262133
title: Additional file 5 of Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency

description: Additional file 5 Table S5. The distribution of PTR gene in Nipponbare, R498 and Oryza glaberrima.
DOI: 10.5281/zenodo.10654845
title: test
DOI: 10.5281/zenodo.10654846
title: test
DOI: 10.6084/m9.figshare.16456275
title: Additional file 1 of Whole-genome association analyses of sleep-disordered breathing phenotypes in the NHLBI TOPMed program

description: Additional file 1: Table S1. NHLBI TOPMed Consortium. Table S2. NHLBI TOPMed Consortium Sleep Working Group. Table S3. Pairwise Phenotype and Covariate Correlations. Table S4. MMSKAT gene-based multiple-population results (p &lt; 0.01). Table S5. MMSKAT gene-based population-specific results (p &lt; 0.01). Table S6. Lead MMSKAT result variants. Table S7. Single-variant analysis results for lead loci. Table S8. Lookups of previously reported GWAS results. Table S9. MetaXcan imputed gene expression results. Table S10. Lead genes in multiple MetaXcan results. Table S11. GIGSEA KEGG pathway results. Table S12. GIGSEA MsigDB transcription factor binding site enrichment results. Table S13. GIGSEA MsigDB miRNA binding site enrichment results. Table S14. Sliding window analysis transcription factor binding analysis enrichment. Table S15. Lead sliding window analysis results.
DOI: 10.6084/m9.figshare.14885418.v1
title: rspa20210337supp4.xlsx from Optimization of a type of elastic metamaterial for broadband wave suppression

description: Numerical data for transient simulations of optimized metamaterial-acceleration versus time in Figure 10 from “Optimization of a type of elastic metamaterial for broadband wave suppression”.
DOI: 10.6084/m9.figshare.11920338
title: GR-mediated FTO transactivation induces lipid accumulation in hepatocytes via demethylation of m<sup>6</sup>A on lipogenic mRNAs

description: Chronic stress or excessive exposure to glucocorticoids (GC) contributes to the pathogenesis of non-alcoholic fatty liver disease (NAFLD). Glucocorticoid receptor (GR) mediates the action of GC, but its downstream signalling is not fully understood. Fat mass and obesity associated (FTO) protein and its demethylation substrate N6-methyladenosine (m<sup>6</sup>A) are both reported to participate in the regulation of lipid metabolism, yet it remains unknown whether they are involved in GC-induced hepatic lipid accumulation as new components of GR signalling. In this study, we use both in vivo and in vitro models of GC-induced hepatic lipid accumulation and demonstrate that the activation of lipogenic genes and accumulation of lipid in liver cells are mediated by GR-dependent FTO transactivation and m<sup>6</sup>A demethylation on mRNA of lipogenic genes. Targeted mutation of m<sup>6</sup>A methylation sites and FTO knockdown further validated the role of m<sup>6</sup>A on 3ʹUTR of sterol regulatory element-binding transcription factor 1 and stearoyl-CoA desaturase mRNAs. Finally, FTO knockdown significantly alleviated dexamethasone-induced fatty liver in mice. These results demonstrate a role of GR-mediated FTO transactivation and m<sup>6</sup>A demethylation in the pathogenesis of NAFLD and provide new insight into GR signalling in the regulation of fat metablism in the liver.
DOI: 10.6084/m9.figshare.23797379.v1
title: Additional file 2 of Immunogenicity and safety of quadrivalent influenza vaccine among young and older adults in Tianjin, China: implication of immunosenescence as a risk factor

description: Additional file 2.
DOI: 10.6084/m9.figshare.23797287
title: Additional file 1 of The role of NPY2R/NFATc1/DYRK1A regulatory axis in sebaceous glands for sebum synthesis

description: Additional file 1: Table S1. Gene information of DEGs compared between PND-25 and PND-35. DEGs are defined as log2 fold change &gt; 1 or &lt; − 1, and p &lt; 0.05. MS: mammary skin; VS: volar skin; AS: abdominal skin.
DOI: 10.6084/m9.figshare.22225475.v1
title: Association between Plasma Big Endothelin-1 Level and The Severity of Coronary Artery Disease in Patients with Non-ST Segment-Elevated Myocardial Infarction

description: Abstract Background Early risk stratification with simple biomarkers is essential in patients with non-ST segment-elevation myocardial infarction (NSTEMI). Objective This study aimed to evaluate the association between plasma big endothelin-1 (ET-1) level and the SYNTAX score (SS) in patients with NSTEMI. Methods A total of 766 patients with NSTEMI undergoing coronary angiography were recruited. Patients were divided into three groups: low SS (≤22), intermediate SS (23-32), and high SS (&gt;32). Spearman correlation, smooth curve fitting, logistic regression, and receiver operating characteristic (ROC) curve analysis were performed to evaluate the association between plasma big ET-1 level and the SS. A p-value &lt;0.05 was considered statistically significant. Results There was a significant correlation between the big ET-1 and the SS (r=0.378, p&lt;0.001). The smoothing curve indicated a positive correlation between the plasma big ET-1 level and the SS. The ROC curve analysis showed that the area under the curve was 0.695 (0.661-0.727) and the optimal cutoff of plasma big ET-1 level was 0.35pmol/l. Logistic regression showed that elevated big ET-1 was an independent predictor of intermediate-high SS in patients with NSTEMI, whether entered as a continuous variable [OR (95% CI): 1.110 (1.053-1.170), p&lt;0.001] or as a categorical variable [OR (95% CI): 2.962 (2.073-4.233), p&lt;0.001]. Conclusion In patients with NSTEMI, the plasma big ET-1 level was significantly correlated with the SS. Elevated plasma big ET-1 level was an independent predictor for intermediate-high SS.
DOI: 10.6084/m9.figshare.13310992.v1
title: Additional file 9 of Application of genome-wide insertion/deletion markers on genetic structure analysis and identity signature of Malus accessions

description: Additional file 9: Supplementary Table S8. Parentage analysis of 66 Malus domestica cultivars using InDel markers.
DOI: 10.6084/m9.figshare.23797319
title: Additional file 3 of Gene co-expression network analysis identifies hub genes associated with different tolerance under calcium deficiency in two peanut cultivars

description: Additional file 3: Table S1. Soil background information. Table S2. RNA-Seq data summary for "XH2008" and "Lanshan" under different calcium treatments. Table S3. Primer sequences of six pairs of genes to be validated using qRT-PCR. Table S4. The module-trait correlation analysis showing pearson correlation value and p-value. Table S5. The KEGG pathways enriched for 61 differentially expressed genes (DEGs) in "XH2008". Table S6. The KEGG pathways enriched for 58 differentially expressed genes (DEGs) in "Lanshan". Table S7. The topological results and  annotationinformation for hub-gene sets in the blue module of "XH2008" cultivar. Table S8. The topological results and  annotation information for hub-gene sets in the green module of "Lanshan" cultivar. Table S9. The gene expression modes for the genes annotated to secondary metabolites.
DOI: 10.6084/m9.figshare.12262127
title: Additional file 4 of Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency

description: Additional file 4 Table S4. Identification of 78 PTR genes in Oryza glaberrima.
DOI: 10.6084/m9.figshare.12262115.v1
title: Additional file 2 of Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency

description: Additional file 2 Table S2. Identification of 96 PTR genes in Nipponbare.
DOI: 10.6084/m9.figshare.13310989.v1
title: Additional file 8 of Application of genome-wide insertion/deletion markers on genetic structure analysis and identity signature of Malus accessions

description: Additional file 8: Supplementary Table S7. Genotype and allele frequencies of 78 bi-allele InDel markers in 1,002 diploid accessions from eight Malus species.
DOI: 10.6084/m9.figshare.12788487
title: Additional file 3 of Genomics-assisted prediction of salt and alkali tolerances and functional marker development in apple rootstocks

description: Additional file 3: Supplementary Table S1. The phenotype data of alkali injury index (AID) of hybrids derived from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila) in 2015–2017. Supplementary Table S2. The phenotype data of salt injury index (SID) of hybrids derived from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila) in 2015–2017. Supplementary Table S3. The phenotype data of salt-alkali injury index (SAID) of hybrids derived from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila) in 2016–2017. Supplementary Table S4. Phenotypes of extremity segregant bulks for injury indices of salt, alkali, and salt-alkali in hybrids derived from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila) Supplementary Table S5. Summary of the BSA-seq data in extremity bulks of tolerant and sensitive using hybrids derived from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila). Supplementary Table S6. Summary of QTLs for injury indices of salt, alkali, and salt-alkali identified via BSA-seq in hybrid population from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila). Supplementary Table S7. Candidate genes for salt, alkali, and salt-alkali tolerance screened by parental re-sequencing, BSA-seq, and RNA-seq in a hybrid population from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila). Supplementary Table S8. Summary of candidate genes for salt, alkali, and salt-alkali tolerance screened by parental re-sequencing, BSA-seq, and RNA-seq in a hybrid population from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila). Supplementary Table S9. samples of root tissue for RNA-seq taken from salt, alkali, and salt-alkali treated hybrids from ‘Baleng Crab’ (Malus robusta) × ‘M9’ (M. pumila). Supplementary Table S10. Summary of the sequencing reads and reads mapping in RNA-seq.
DOI: 10.6084/m9.figshare.13312624
title: Functional analysis of a novel <i>cryptochrome</i> gene (<i>GbCRY1</i>) from <i>Ginkgo biloba</i>

description: Cryptochrome (CRY) is a blue light receptor that is widely distributed in animals, plants, and microorganisms. <i>CRY</i> as a coding gene of cryptochrome that regulates the organism gene expression and plays an important role in organism growth and development. In this study, we identified four photolyase/cryptochrome (PHR/CRY) members from the genome of <i>Ginkgo biloba</i>. Phylogenetic tree analysis showed that the Ginkgo PHR/CRY family members were closely related to <i>Arabidopsis thaliana</i> and <i>Solanum lycopersicum</i>. We isolated a cryptochrome gene, <i>GbCRY1</i>, from <i>G. biloba</i> and analyzed its structure and function. <i>GbCRY1</i> shared high similarity with <i>AtCRY1</i> from <i>A. thaliana. GbCRY1</i> expression level was higher in stems and leaves and lower in roots, male strobili, female strobili. <i>GbCRY1</i> expression level fluctuated periodically within 24 h, gradually increased in the dark, and decreased under blue light. The newly germinated ginkgo seedlings were cultured under dark, white light, and blue light conditions. The blue light normally induced photomorphogenesis of ginkgo seedlings, which included hypocotyl elongation inhibition, leaf expansion inhibition, and chlorophyll formation. Treating dark-adapted ginkgo leaves with blue light could induce stomatal opening. At the same time, blue light reduced the expression level of <i>GbCRY1</i> in the process of inducing photomorphogenesis and stoma opening. Our results provide evidence that <i>GbCRY1</i> expression is affected by space, circadian cycle and light, and also proves that <i>GbCRY1</i> is related to ginkgo circadian clock, photomorphogenesis and stoma opening process.
DOI: 10.6084/m9.figshare.12262145.v1
title: Additional file 7 of Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency

description: Additional file 7 Table S7. Ka/Ks ratio of PTR gene pairs in rice.
DOI: 10.6084/m9.figshare.7021022.v1
title: Additional file 4: of The c-Myc-regulated lncRNA NEAT1 and paraspeckles modulate imatinib-induced apoptosis in CML cells

description: Table S2. Gene expression level in si-NC and si-SFPQ cells with or without IM treatment. (XLSX 1424 kb)
DOI: 10.6084/m9.figshare.12262139
title: Additional file 6 of Genome-wide identification of the peptide transporter family in rice and analysis of the PTR expression modulation in two near-isogenic lines with different nitrogen use efficiency

description: Additional file 6 Table S6. The distribution of PTR genes in six species.
DOI: 10.6084/m9.figshare.16456275.v1
title: Additional file 1 of Whole-genome association analyses of sleep-disordered breathing phenotypes in the NHLBI TOPMed program

description: Additional file 1: Table S1. NHLBI TOPMed Consortium. Table S2. NHLBI TOPMed Consortium Sleep Working Group. Table S3. Pairwise Phenotype and Covariate Correlations. Table S4. MMSKAT gene-based multiple-population results (p &lt; 0.01). Table S5. MMSKAT gene-based population-specific results (p &lt; 0.01). Table S6. Lead MMSKAT result variants. Table S7. Single-variant analysis results for lead loci. Table S8. Lookups of previously reported GWAS results. Table S9. MetaXcan imputed gene expression results. Table S10. Lead genes in multiple MetaXcan results. Table S11. GIGSEA KEGG pathway results. Table S12. GIGSEA MsigDB transcription factor binding site enrichment results. Table S13. GIGSEA MsigDB miRNA binding site enrichment results. Table S14. Sliding window analysis transcription factor binding analysis enrichment. Table S15. Lead sliding window analysis results.
DOI: 10.15156/bio/sh1210914.09fu
title: SH1210914.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1210915.09fu
title: SH1210915.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1210916.09fu
title: SH1210916.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.