cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7936469.v1
title: Additional file 1: of High accumulation of Îł-linolenic acid and Stearidonic acid in transgenic Perilla (Perilla frutescens var. frutescens) seeds

description: Table S1. Primers used in this study. Nucleotide symbols are as follows: Y, C/T; R, G/A; W, A/T; D, G/A/T; N, A/T/G/C. Table S2. Segregation ratio of D6DES T1 perilla plants treated with Basta. Table S3. Genotyping of D6DES T2 perilla plants treatment with Basta. (ZIP 3970 kb)
DOI: 10.6084/m9.figshare.14396949
title: Additional file 4 of Self-efficacy of direct care workers providing care to older people in residential aged care settings: a scoping review protocol

description: Additional file 4. Data extraction form for intervention studies.
DOI: 10.6084/m9.figshare.14396946
title: Additional file 3 of Self-efficacy of direct care workers providing care to older people in residential aged care settings: a scoping review protocol

description: Additional file 3. Data extraction form for cross-sectional studies.
DOI: 10.6084/m9.figshare.12142086.v1
title: Composite quasi-likelihood for single-index models with massive datasets

description: The single-index models (SIMs) provide an efficient way of coping with high-dimensional nonparametric estimation problems and avoid the “curse of dimensionality.” Many existing estimation procedures for SIMs were built on least square loss, which is popular for its mathematical beauty but is non-robust to non-normal errors and outliers. This article addressed the question of both robustness and efficiency of estimation methods based on a new data-driven weighted linear combination of convex loss functions instead of only quadratic loss for SIMs. The optimal weights can be chosen to provide maximum efficiency and these optimal weights can be estimated from data. As a specific example, we introduce a robust method of composite least square and least absolute deviation methods. Moreover, we extend the proposed method to the analysis of massive datasets via a divide-and-conquer strategy. The proposed approach significantly reduces the required primary memory and the resulting estimate is as efficient as if the entire dataset was analyzed simultaneously. The asymptotic normality of the proposed estimators is established. The simulation studies and real data applications are conducted to illustrate the finite sample performance of the proposed methods.
DOI: 10.6084/m9.figshare.14396946.v1
title: Additional file 3 of Self-efficacy of direct care workers providing care to older people in residential aged care settings: a scoping review protocol

description: Additional file 3. Data extraction form for cross-sectional studies.
DOI: 10.6084/m9.figshare.14396952
title: Additional file 5 of Self-efficacy of direct care workers providing care to older people in residential aged care settings: a scoping review protocol

description: Additional file 5. Data extraction form for qualitative data.
DOI: 10.6084/m9.figshare.14396952.v1
title: Additional file 5 of Self-efficacy of direct care workers providing care to older people in residential aged care settings: a scoping review protocol

description: Additional file 5. Data extraction form for qualitative data.
DOI: 10.6084/m9.figshare.7936481
title: Additional file 1: of Genome-wide identification and abiotic stress-responsive pattern of heat shock transcription factor family in Triticum aestivum L.

description: Table S1. Sequences and transcript IDs of novel TaHsfs. (XLSX 73 kb)
DOI: 10.6084/m9.figshare.7422869
title: Table S2. mtDNA types based on single nucletodie polymorphisms (SNPs). from Clonal evolution and genome stability in a 2500-year-old fungal individual

description: Describes mitochondrial DNA variation among individuals
DOI: 10.6084/m9.figshare.7936487
title: Additional file 2: of Genome-wide identification and abiotic stress-responsive pattern of heat shock transcription factor family in Triticum aestivum L.

description: Table S2. Physical location of TaHsfs. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7936496
title: Additional file 4: of Genome-wide identification and abiotic stress-responsive pattern of heat shock transcription factor family in Triticum aestivum L.

description: Table S4. Exon-intron structures of TaHsfs. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.11618334.v1
title: Assemblies

description: Supplementary files. Assemblies associated with four European Salmonella Typhimurium datasets collected to develop WGS-based source attribution methods.
DOI: 10.6084/m9.figshare.7936493.v1
title: Additional file 3: of Genome-wide identification and abiotic stress-responsive pattern of heat shock transcription factor family in Triticum aestivum L.

description: Table S3. Orthologous gene pairs of Hsf family of Triticum aestivum, Oryza sativa, Zea mays and Arabidopsis thaliana. (XLS 25 kb)
DOI: 10.6084/m9.figshare.7936514.v1
title: Additional file 7: of Genome-wide identification and abiotic stress-responsive pattern of heat shock transcription factor family in Triticum aestivum L.

description: Table S7. Gene-specific and internal reference gene TaRP15 primers used for qRT-PCR. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.22623370.v1
title: Additional file 1 of The impact of COVID-19 on online medical education: a knowledge graph analysis based on co-term analysis

description: Additional file 1.
DOI: 10.6084/m9.figshare.14234812.v1
title: Additional file 9 of The Bdkrb2 gene family provides a novel view of viviparity adaptation in Sebastes schlegelii

description: Additional file 9. Table S3. Expression levels (TPM; Transcripts Per Million) of metioned genes in different tissues of black rockfish. The prefix C indicated for connective tissue rich in blood vessels covering the egg membrane and E for embryos and O for ovarian wall. Arabic numerals represent different stages. 1, prefertilization; 2, 1-cell; 3, 8-cells; 4, 16-cells; 5, gastrula stage; 6, 8-somites stage; 7, tailbud stage; 8, pre-hatching; 9, hatching.
DOI: 10.6084/m9.figshare.20006726
title: <i>Gomphocantharellus</i>, a new genus of Gomphales

description: The genus <i>Gomphocantharellus</i> and species <i>Gomphocantharellus cylindrosporus</i> are proposed as new based on morphological assessments and molecular phylogenetic evidence inferred from nucleotide sequences of mitochondrial (mt) adenosine triphosphate (ATPase) subunit 6 (<i>atp6</i>) and mt small subunit rDNA (mtSSU). Basidiomes of <i>G. cylindrosporus</i> are characterized by the peach to pinkish orange color, cantharelloid habit with a gill-like hymenophore with obtuse edges, smooth and cylindrical to allantoid basidiospores, and cylindrical to narrowly clavate flexuous pleurocystidia. The species resembles a species of <i>Cantharellus</i> but differs from the latter by the cylindrical basidiospores. Phylogenetic analyses confirm the placement of <i>Gomphocantharellus</i> as an independent lineage within the order Gomphales.
DOI: 10.6084/m9.figshare.20006732.v1
title: Somatic mutation-associated risk index based on lncRNA expression for predicting prognosis in acute myeloid leukemia

description: <b>Objectives:</b> Genomic instability has several implications for acute myeloid leukemia (AML) prognosis. This article aims to construct a somatic mutation-associated risk index (SMRI) of genomic instability for AML to predict prognosis and explore the potential determinants of AML prognosis. <b>Methods:</b> We obtained differentially expressed lncRNAs from genomic instability subtypes and selected six lncRNAs to construct the SMRI through multivariate Cox regression analysis. The median SMRI classified patients into high and low SMRI groups. Kaplan–Meier survival analysis was used to clarify the prognostic differences of SMRI subtypes. Receiver operating characteristic curve analysis was performed to elucidate the value of SMRI as a prognostic indicator. Gene set variation analysis, tumor mutation burden (TMB) analysis, immune infiltration, and immune checkpoint expression analysis were performed to investigate possible causes for the differences in prognosis of SMRI subtypes. <b>Results:</b> The high SMRI group exhibited a poor prognosis, which was characterized by elevated levels of TMB, mutation counts (TP53, NPM1, DNMT3A, and FLT3-TKD), CD8<sup>+</sup> T cell infiltration, and immune checkpoint (PD-1, PD-L2, CTLA4, LAG3) expression. The SMRI was still associated with prognosis, even after adjustment for age, sex, cytogenetic risk, DNMT3A status, FLT3 status, and NPM1 status. Gene set variation analysis showed that AML with FLT3-ITD mutation, CEBPA mutation, and LSCs (leukemia stem cells) were enriched in the high SMRI group. <b>Conclusion:</b> Our research suggests that the SMRI derived from genomic instability subtypes is a useful biomarker for predicting prognosis and may be beneficial for improving the clinical outcome of patients with AML.
DOI: 10.6084/m9.figshare.7936460.v1
title: Additional file 3: of Molecular evolutionary trends and feeding ecology diversification in the Hemiptera, anchored by the milkweed bug genome

description: Chemoreceptor sequences in FASTA format. (FASTA 128 kb)
DOI: 10.6084/m9.figshare.22623431
title: Additional file 3 of Adiponectin deficiency accelerates brain aging via mitochondria-associated neuroinflammation

description: Additional file 3.
DOI: 10.6084/m9.figshare.12667703
title: Additional file 3 of Transcriptomic and proteomic analyses of ovarian follicles reveal the role of VLDLR in chicken follicle selection

description: Additional file 3: Table S3. DEPs between F and S. (XLSX 171kb)
DOI: 10.6084/m9.figshare.12667733
title: Additional file 3 of Integrated metabolomic and transcriptomic profiling reveals the tissue-specific flavonoid compositions and their biosynthesis pathways in Ziziphora bungeana

description: Additional file 3. DEGs assigned in GO and KEGG.
DOI: 10.6084/m9.figshare.7415294
title: Organic Carbon Plays an Important Role in Antarctic Lake Region Soil Bacterial Diversity

description: 16S rRNA gene amplicons were sequenced on an Illumina MiSeq platform, and 250-bp paired-end reads were generated. Clean reads were obtained by removing barcode and primer sequences, trimming end bases and filtering low-quality bases, with QIIME (version 1.7.0) (Caporaso et al. 2010b), chimeras were detected by the UCHIME algorithm (Edgar Robert C. et al. 2011) and against the Gold database, and finally the chimeric sequences and lllumina adapters were removed
DOI: 10.6084/m9.figshare.12667736
title: Additional file 4 of Integrated metabolomic and transcriptomic profiling reveals the tissue-specific flavonoid compositions and their biosynthesis pathways in Ziziphora bungeana

description: Additional file 4. Flavonoid biosynthesis related DEGs.
DOI: 10.6084/m9.figshare.12667739
title: Additional file 5 of Integrated metabolomic and transcriptomic profiling reveals the tissue-specific flavonoid compositions and their biosynthesis pathways in Ziziphora bungeana

description: Additional file 5. FPKM values of 36 candidate unigenes.
DOI: 10.6084/m9.figshare.12667739.v1
title: Additional file 5 of Integrated metabolomic and transcriptomic profiling reveals the tissue-specific flavonoid compositions and their biosynthesis pathways in Ziziphora bungeana

description: Additional file 5. FPKM values of 36 candidate unigenes.
DOI: 10.6084/m9.figshare.12667397
title: Additional file 8 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 8: Table S5. KEGG pathway annotation of Osmanthus fragrans unigenes obtained from the reference transcriptome. There were 40,764 unigenes mapped into 134 KEGG pathways.
DOI: 10.6084/m9.figshare.12667706.v1
title: Additional file 4 of Transcriptomic and proteomic analyses of ovarian follicles reveal the role of VLDLR in chicken follicle selection

description: Additional file 4: Table S4. Protein and Transcript quantiation combine. (XLS 35 kb)
DOI: 10.6084/m9.figshare.20006726.v1
title: <i>Gomphocantharellus</i>, a new genus of Gomphales

description: The genus <i>Gomphocantharellus</i> and species <i>Gomphocantharellus cylindrosporus</i> are proposed as new based on morphological assessments and molecular phylogenetic evidence inferred from nucleotide sequences of mitochondrial (mt) adenosine triphosphate (ATPase) subunit 6 (<i>atp6</i>) and mt small subunit rDNA (mtSSU). Basidiomes of <i>G. cylindrosporus</i> are characterized by the peach to pinkish orange color, cantharelloid habit with a gill-like hymenophore with obtuse edges, smooth and cylindrical to allantoid basidiospores, and cylindrical to narrowly clavate flexuous pleurocystidia. The species resembles a species of <i>Cantharellus</i> but differs from the latter by the cylindrical basidiospores. Phylogenetic analyses confirm the placement of <i>Gomphocantharellus</i> as an independent lineage within the order Gomphales.
DOI: 10.6084/m9.figshare.12667742
title: Additional file 6 of Integrated metabolomic and transcriptomic profiling reveals the tissue-specific flavonoid compositions and their biosynthesis pathways in Ziziphora bungeana

description: Additional file 6. FPKM values of the 14 genes.
DOI: 10.6084/m9.figshare.12667727.v1
title: Additional file 1 of Integrated metabolomic and transcriptomic profiling reveals the tissue-specific flavonoid compositions and their biosynthesis pathways in Ziziphora bungeana

description: Additional file 1: Table S1. Primers used to amplify the coding sequences of the unigenes in Ziziphora bungena; Table S2. qPCR primers used for gene expression analysis; Table S3. Identification of flavonoid components in root, stem, leaf, inflorescence of Ziziphora bungeana using LC–MS/MS in negative ion and positive ion mode; Table S4. Variance analysis of relative peak area of the 12 flavonoids from Z. bungeana; Table S5. Statistics data for transcriptome; Table S6. Summary of the unigene annotation results.
DOI: 10.6084/m9.figshare.14234911
title: Additional file 1 of ZnO nanoparticle-based seed priming modulates early growth and enhances physio-biochemical and metabolic profiles of fragrant rice against cadmium toxicity

description: Additional file 3:Table S2. Metabolites detected in the rice varieties.
DOI: 10.6084/m9.figshare.12667367
title: Additional file 12 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 12: Table S9. DEGs involved in the phytohormone signal transduction pathway under different temperatures treated by different days in Osmanthus fragrans.
DOI: 10.6084/m9.figshare.12667370
title: Additional file 13 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 13: Table S10. DEGs involved in TFs under different temperatures treated by different days in Osmanthus fragrans.
DOI: 10.34740/kaggle/dsv/7589186
title: SCMI30-IITRPR
DOI: 10.6084/m9.figshare.22634719
title: <strong>Pre-aged terrigenous organic carbon</strong> <strong>biases ocean ventilation-age reconstructions in the North Atlantic </strong>

description: Supplementary Dataset S1 to S5 for “  
<strong>Pre-aged terrigenous organic carbon</strong> <strong>biases ocean ventilation-age reconstructions</strong> <strong>in the North Atlantic</strong> ”
DOI: 10.6084/m9.figshare.12667373
title: Additional file 14 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 14: Table S11. Primer sequences and amplicon characteristics.
DOI: 10.6084/m9.figshare.21586161
title: C Type Natriuretic Peptide Receptor Activation Inhibits Sodium Channel Activity in Human Aortic Endothelial Cells by Activating the Diacylglycerol and Protein Kinase C Pathway

description: Supplementary Table 1: Lipidomics raw data.
DOI: 10.6084/m9.figshare.12666830
title: STABILITY OF THE HUMAN GUT VIROME AND EFFECT OF GLUTEN-FREE DIET

description: The human gut microbiome consists of bacteria, archaea, eukaryotes, and viruses. The gut viruses are relatively underexplored. Here, we longitudinally analysed the gut virome composition in 11 healthy adults, its stability, variation, and the effect of a gluten-free diet. Using viral enrichment and a de novo assembly-based approach, we demonstrate the quantitative dynamics of the gut virome, including dsDNA, ssDNA, dsRNA, and ssRNA viruses. We observe highly divergent individual viral communities, carrying on an average 2,143 viral genomes, 13.1% of which were present at all three time points. In contrast to previous reports, the Siphoviridae family dominates over Microviridae in studied individual viromes. We also show individual viromes to be stable at the family level but vary substantially at the genera and species levels. Finally, we demonstrate that lower initial diversity of the human gut virome leads to a more pronounced effect of the dietary intervention on its composition. <br>
DOI: 10.6084/m9.figshare.20128537.v1
title: Additional file 2 of Forsythiaside A improves Influenza A virus infection through TLR7 signaling pathway in the lungs of mice

description: Additional file 2. Raw data RT-PCR.
DOI: 10.6084/m9.figshare.20007113
title: Acute WT1-positive promyelocytic leukemia with hypogranular variant morphology, bcr-3 isoform of PML-RARα and Flt3-ITD mutation: a rare case report

description: ABSTRACT CONTEXT: Acute promyelocytic leukemia (APL) accounts for 8% to 10% of cases of acute myeloid leukemia (AML). Remission in cases of high-risk APL is still difficult to achieve, and relapses occur readily. CASE REPORT: Here, we describe a case of APL with high white blood cell counts in blood tests and hypogranular variant morphology in bone marrow, together with fms-like tyrosine kinase-3 with internal tandem duplication mutations (FLT3-ITD), and bcr-3 isoform of PML-RARα. Most importantly, we detected high level of Wilms’ tumor gene (WT1) in marrow blasts, through the reverse transcription polymerase chain reaction (RT-PCR). To date, no clear conclusions about an association between WT1 expression levels and APL have been reached. This patient successively received a combined treatment regimen consisting of hydroxycarbamide, arsenic trioxide and idarubicin plus cytarabine, which ultimately enabled complete remission. Unfortunately, he subsequently died of sudden massive hemoptysis because of pulmonary infection. CONCLUSION: Based on our findings and a review of the literature, abnormal functioning of WT1 may be a high-risk factor in cases of APL. Further studies aimed towards evaluating the impact of WT1 expression on the prognosis for APL patients are of interest.
DOI: 10.6084/m9.figshare.12667397.v1
title: Additional file 8 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 8: Table S5. KEGG pathway annotation of Osmanthus fragrans unigenes obtained from the reference transcriptome. There were 40,764 unigenes mapped into 134 KEGG pathways.
DOI: 10.6084/m9.figshare.7936475.v1
title: Additional file 2: of High accumulation of γ-linolenic acid and Stearidonic acid in transgenic Perilla (Perilla frutescens var. frutescens) seeds

description: Figure S1. Vector constructs containing the PcD6DES gene. (A) Vector for yeast transformation. PGAL1 and CYS TT represent galactose-inducible GAL1 promoter and CYC1 transcriptional terminator, respectively. URA encodes a biosynthetic enzyme of uracil, as a marker gene for yeast selection. AmpR encodes β-lactamase that inactivates antibiotics ampicillin, as a marker gene for E. coli selection. (B) Vector for plant transformation. pCAMBIA3300 was used as a backbone vector. Pvic and Tocs indicate vicilin promoter and octopine synthase III terminator, respectively. LB and RB represent left border and right border, respectively. Each box represents a gene expression cassette. B, BamHI; C, ClaI; H3, HindIII; K, KpnI; N, NotI; P, PstI; R1, EcoRI; Sc, SacI; X, XbaI, Xh, XhoI. Figure S2. The predicted transmembrane domains of fatty acid desaturases including (A) Phytophthora citrophthora D6DES, (B) evening primrose (Oenothera biennis) D6DES (GenBank accession No. EU416278) and (C) Perilla frutescens var. frutescens FAD2 (GenBank accession No. KP070823) by TOPCONS. Figure S3. The expression from PcD6DES gene in RNA level from S. cerevisiae. RT-PCR from total RNAs of PcD6DES yeast. pYES2 is yeast cells harboring a blank vector as an negative control. PcD6DES is yeast cells carrying pYES2-PcD6DES. ScAct1 is a reference gene from S. cerevisiae actin gene (GenBank accession No. L00026). – and + indicate non-induction and induction, respectively. The induction method of yeast was described in Methods section. M, 1 kb DNA ladder. Figure S4. TLC analysis of lipids extracted from perilla mature seeds. The lipids were developed and visualized under the ultra violet after the primuline spraying. The spots corresponding neutral lipids (TAG and DAG) and polar lipids were scraped off and the fatty acid composition was analyzed with GC. The method using this experiment is described in the ‘Thin layer chromatography (TLC)’ subsection of Methods section (ZIP 537 kb)
DOI: 10.6084/m9.figshare.12667364
title: Additional file 11 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 11: Table S8. DEGs involved in the cell wall metabolism under different temperatures treated by different days in Osmanthus fragrans.
DOI: 10.22008/fk2/fowdqp/tpabc6
title: Gravimetry data of Denmark.7z

description: :unav
DOI: 10.6084/m9.figshare.12667367.v1
title: Additional file 12 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 12: Table S9. DEGs involved in the phytohormone signal transduction pathway under different temperatures treated by different days in Osmanthus fragrans.
DOI: 10.6084/m9.figshare.12667373.v1
title: Additional file 14 of Transcriptomic analysis of flower opening response to relatively low temperatures in Osmanthus fragrans

description: Additional file 14: Table S11. Primer sequences and amplicon characteristics.
DOI: 10.6084/m9.figshare.21586542
title: Supporting data for "Relative roles of land and ocean cooling in triggering an El Niño following tropical volcanic eruptions"

description: The data include volcanic aerosol forcing over different ocean and land regions, and monthly precipitation, sea surface temperature, sea surface height, and 850hPa zonal wind.
DOI: 10.6084/m9.figshare.7936487.v1
title: Additional file 2: of Genome-wide identification and abiotic stress-responsive pattern of heat shock transcription factor family in Triticum aestivum L.

description: Table S2. Physical location of TaHsfs. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.13192044.v1
title: Additional file 7 of Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility

description: Additional file 7. List of GO sub-categories of the DEGs identified between Shaan2A and KC01.
DOI: 10.6084/m9.figshare.7936496.v1
title: Additional file 4: of Genome-wide identification and abiotic stress-responsive pattern of heat shock transcription factor family in Triticum aestivum L.

description: Table S4. Exon-intron structures of TaHsfs. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.13192041
title: Additional file 6 of Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility

description: Additional file 6. RNA-seq analysis of DEGs identified between Shaan2A and KC01 at YB and SA stage, respectively.
DOI: 10.6084/m9.figshare.13192044
title: Additional file 7 of Genome-wide identification of the restorer-of-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility

description: Additional file 7. List of GO sub-categories of the DEGs identified between Shaan2A and KC01.