cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20059023.v1
title: Diversity and profiles of volatile compounds in twenty-five peppermint genotypes grown in China

description: Peppermint (<i>Mentha piperita</i> L.) is one of the most cultivated and consumed herbs. The pharmaceutical properties and nutrition values of peppermint oil make it an important commercial product. This study aimed to explore the volatile compounds in the essential oil extracted from different peppermint genotypes commercially grown in China. Oil extraction using a steam distillation followed by gas chromatography-mass spectrometry resulted in the quantification of 53 volatile compounds from five major classes, including esters, alcohols, ketones, terpenes, and volatile compounds. The highest essential oil yields were observed in Golden mint, Silver mint, Scottish mint, and Banana mint. Moreover, three genotypes, viz., Milk fruit mint, Winter Mint, and Pineapple, were screened with the highest diversity of volatile compounds. Major volatiles identified were linalyl acetate, 1-octene-3-acetate, geranyl acetate, neryl acetate, menthol, linalool, menthone, and carvone. The phenotypic characterization coupled with the volatile profiling in this study provides the basis for selecting and improving the investigated peppermint genotypes for specific commercial uses.
DOI: 10.6084/m9.figshare.21102298.v1
title: Additional file 6 of Landscape of the gut archaeome in association with geography, ethnicity, urbanization, and diet in the Chinese population

description: Additional file 6: Supplementary Table 2. Metadata for all study subjects.
DOI: 10.6084/m9.figshare.7996925
title: Additional file 8: of Selective translational usage of TSS and core promoters revealed by translatome sequencing

description: Table S5. Comparison of genes’ abundance between translatome and transcriptome. “Ep”, “Et” and “Sfc” are all defined in the main text. “p-value” and “q-value” are calculated with the R package of DEGseq. Genes are ranked by the q-value. Genes with too few reads to calculated the p-values are removed from this table. (XLSX 925 kb)
DOI: 10.6084/m9.figshare.14812540.v1
title: Additional file 6 of Conversion between 100-million-year-old duplicated genes contributes to rice subspecies divergence

description: Additional file 6: Table S4. Homology of donor locus and acceptor locus gene conversions.
DOI: 10.6084/m9.figshare.5903329
title: Additional file 18: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S3. Emission probability and transition probability of Chromatin States defined by ChromHMM. (XLSX 46Â kb)
DOI: 10.6084/m9.figshare.14816259
title: N-terminal region is required for functions of the HAM family member

description: Shoot meristems contain stem cells, and they sustain growth and development of the above-ground tissues in land plants. The <i>HAIRY MERISTEM</i> (<i>HAM</i>) family genes, encoding GRAS-domain transcriptional regulators, play essential roles in the control of shoot meristem development and stem cell homeostasis in several flowering plants. Similar to other GRAS proteins, the C-terminal regions of HAM family proteins across land plants are conserved, containing signature motifs that define the GRAS domain. In contrast, the N-terminal regions of HAM family proteins display substantial divergence in sequence and length. Whether the variable and divergent N-termini are required for the conserved functions of HAM proteins is unknown. Our recent work showed that <i>CrHAM</i> – the <i>HAM</i> homolog in the fern <i>Ceratopteris richardii</i> was able to replace the role of type-II <i>HAM</i> genes in Arabidopsis, maintaining established shoot apical meristems and promoting the initiation of new stem cell niches. Here, we provide additional information and show that CrHAM contains a much longer N-terminal region compared to Arabidopsis HAM proteins, which is conserved among different fern HAM homologs. The deletion of this region largely compromises the ability of CrHAM to replace the function of Arabidopsis HAM proteins in shoot meristems. These new data together with previous results suggest that, although lacking the sequence conservation among HAM homologs from different plant lineages, the N-termini are important for the conserved functions of HAM family proteins.
DOI: 10.6084/m9.figshare.14812531
title: Additional file 3 of Conversion between 100-million-year-old duplicated genes contributes to rice subspecies divergence

description: Additional file 3: Table S3. Gene conversion of the three rice subspecies genomes.
DOI: 10.6084/m9.figshare.14812540
title: Additional file 6 of Conversion between 100-million-year-old duplicated genes contributes to rice subspecies divergence

description: Additional file 6: Table S4. Homology of donor locus and acceptor locus gene conversions.
DOI: 10.6084/m9.figshare.16913416
title: ANXA1 (Annexin A1) regulated by MYC (MYC proto-oncogene) promotes the growth of papillary thyroid carcinoma

description: Thyroid carcinoma is one of the most common endocrine malignancies, in which papillary thyroid carcinoma (PTC) is the main pathotype. ANXA1 plays a significant role in many cancer types, but how it works in PTC has not been identified. MYC is a common transcript factor involved in tumorigenesis, development, invasion, and metastasis. The relation between ANXA1 and MYC has not been proved in PTC. In this study, firstly, we analyzed the expression and prognostic value of ANXA1 in pan-cancer using the data from the UCSC database. Then we explore the role of ANXA1 in PTC, including expression, prognostic value, and immune infiltration. In addition, we evaluated the relation between ANXA1 and the transcription factor MYC. Finally, we identified the expression of ANXA1 and MYC and then evaluated their function associated with proliferation and apoptosis in PTC cell lines by CCK8 proliferation and flow cytometry apoptosis experiment. We found that ANXA1 is up-regulated in PTC comparing with normal patients. High expression of ANXA1 was associated with adverse overall survival of PTC. ANXA1 may be regulated by MYC to promote the proliferation of PTC. MYC may regulate the expression of ANXA and thus affect the proliferation of PTC.
DOI: 10.24403/jp.1321008
title: Goethe, J. W. v.: Die Metamorphose der Pflanzen. Mit Erläuterungen und einem Nachwort von Dorothea Kuhn. - Weimar : Verlag Hermann Böhlaus Nachfolger, 1984 / [rezensiert von] H. Manitz
DOI: 10.24403/jp.1321013
title: Jülich, W.: Kleine Kryptogamenflora. 2b/1: Basidiomyceten, 1. Teil: Die Nichtblätterpilze, Gallertpilze und Bauchpilze. - Jena : VEB Gustav Fischer Verlag, 1984 / [rezensiert von] G. Hirsch
DOI: 10.24403/jp.1321018
title: Eine neue Tillandsia aus Mexico / Lieselotte Hromadnik, Peter Schneider
DOI: 10.6084/m9.figshare.14812548
title: Additional file 2 of Expressional diversity of grapevine 3-Hydroxy-3-methylglutaryl-CoA reductase (VvHMGR) in different grapes genotypes

description: Additional file 2: Table S1. Primer used for qRT-PCR on the grape. Table S2. Information on HMGR genes. Table S3. Analysis of protein secondary structure. Table S4. Prediction of subcellular localization. Table S5. Aroma components of 10 varieties in berry skin and berry flesh.
DOI: 10.24403/jp.1321019
title: Zur Kenntnis der Lebermoosgattung Otolejeunea / Riclef Grolle
DOI: 10.24403/jp.1321020
title: Zur Pilzflora der Thüringischen Rhön / Gerald Hirsch
DOI: 10.6084/m9.figshare.7996880
title: Additional file 3: of Selective translational usage of TSS and core promoters revealed by translatome sequencing

description: Table S1. TCs with changed 5’ end distributions between translatome and transcriptome. “Chr” stands for “chromosome”. “TC start” and “TC end” gives the genomic range of TCs on the human genome. “Gene Symbol” shows the genes where TCs are located. “Source” shows where TCs come from. P-values are calculated with KS test and adjusted with BH method. Any two TCs in sequential rows from Translatome and transcriptome correspond to the same core promoter and thus have the same p-value. (XLSX 268 kb)
DOI: 10.6084/m9.figshare.7996937
title: Additional file 9: of Selective translational usage of TSS and core promoters revealed by translatome sequencing

description: Table S6. Differential usage of core promoters from the same gene by polysome. Under each gene name, there are two (or more) rows corresponding to two (or more) core promoters of the gene. Each gene has one Sdu score, which is defined in the main text. (XLSX 660 kb)
DOI: 10.6084/m9.figshare.7996889
title: Additional file 4: of Selective translational usage of TSS and core promoters revealed by translatome sequencing

description: Table S2. Length difference of the 5’ UTR between translatome and transcriptome. “Length Difference” shows the difference in length of the 5’ UTR. “Length Status” shows whether the length of the 5’UTR in translatome is the same as, or shorter than, or longer than that in transcriptome. The definitions of the other column names are the same as in Additional file 3: Table S1. (XLSX 1009 kb)
DOI: 10.6084/m9.figshare.21102277
title: Additional file 11 of Landscape of the gut archaeome in association with geography, ethnicity, urbanization, and diet in the Chinese population

description: Additional file 11: Supplementary Table 7. Ethnicity-specific EGGNOG and MetaCyc functions in the gut archaeome.
DOI: 10.6084/m9.figshare.7996895
title: Additional file 5: of Selective translational usage of TSS and core promoters revealed by translatome sequencing

description: Table S3. Usage frequency of HEK293-derived representative TSSs in 180 human samples. All 3248 representative TSSs are from HEK293 translatome. In the table, â 1â means the representative TSS (row name) is also used as representative TSS in the sample (column name). The name of each representative TSS contains the information of chromosome, strand and genomic position. (XLSX 1773 kb)
DOI: 10.6084/m9.figshare.7996904
title: Additional file 6: of Selective translational usage of TSS and core promoters revealed by translatome sequencing

description: Table S4. TCs with significantly changed RPM between translatome and transcriptome. “z-score”, “p-value” and “q-value” are calculated with the R package of DEGseq. TCs are ranked by the q-values. (XLSX 2126 kb)
DOI: 10.6084/m9.figshare.22677152
title: Investigations of a combination of atopic status and age of asthma onset identify asthma subphenotypes

description: Subphenotypes of asthma may be determined by age onset and atopic status. We sought to characterize early or late onset atopic asthma with fungal or non-fungal sensitization (AAFS or AANFS) and non-atopic asthma (NAA) in children and adults in the Severe Asthma Research Program (SARP). SARP is an ongoing project involving well-phenotyped patients with mild to severe asthma. Phenotypic comparisons were performed using Kruskal-Wallis or chi-square test. Genetic association analyses were performed using logistic or linear regression. Airway hyper-responsiveness, total serum IgE levels, and T2 biomarkers showed an increasing trend from NAA to AANFS and then to AAFS. Children and adults with early onset asthma had greater % of AAFS than adults with late onset asthma (46% and 40% vs. 32%; <i>P</i> &lt; 0.00001). In children, AAFS and AANFS had lower % predicted FEV<sub>1</sub> (86% and 91% vs. 97%) and greater % of patients with severe asthma than NAA (61% and 59% vs. 43%). In adults with early or late onset asthma, NAA had greater % of patients with severe asthma than AANFS and AAFS (61% vs. 40% and 37% or 56% vs. 44% and 49%). The G allele of rs2872507 in <i>GSDMB</i> had higher frequency in AAFS than AANFS and NAA (0.63 vs. 0.55 and 0.55), and associated with earlier age onset and asthma severity. Early or late onset AAFS, AANFS, and NAA have shared and distinct phenotypic characteristics in children and adults. AAFS is a complex disorder involving genetic susceptibility and environmental factors.
DOI: 10.24403/jp.1321021
title: Juncus sphaerocarpus bei Dachwig und Hopfgarten (Bezirk Erfurt) / W. Westhus
DOI: 10.24403/jp.1321384
title: Bemerkenswerte Pflanzenfunde / W. Heinrich
DOI: 10.6084/m9.figshare.6948524
title: Additional file 6: of SPAG5 interacts with CEP55 and exerts oncogenic activities via PI3K/AKT pathway in hepatocellular carcinoma

description: Table S1. The top 50 genes co-expressing with SPAG5 in HCC samples were shown. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.22677152.v1
title: Investigations of a combination of atopic status and age of asthma onset identify asthma subphenotypes

description: Subphenotypes of asthma may be determined by age onset and atopic status. We sought to characterize early or late onset atopic asthma with fungal or non-fungal sensitization (AAFS or AANFS) and non-atopic asthma (NAA) in children and adults in the Severe Asthma Research Program (SARP). SARP is an ongoing project involving well-phenotyped patients with mild to severe asthma. Phenotypic comparisons were performed using Kruskal-Wallis or chi-square test. Genetic association analyses were performed using logistic or linear regression. Airway hyper-responsiveness, total serum IgE levels, and T2 biomarkers showed an increasing trend from NAA to AANFS and then to AAFS. Children and adults with early onset asthma had greater % of AAFS than adults with late onset asthma (46% and 40% vs. 32%; <i>P</i> &lt; 0.00001). In children, AAFS and AANFS had lower % predicted FEV<sub>1</sub> (86% and 91% vs. 97%) and greater % of patients with severe asthma than NAA (61% and 59% vs. 43%). In adults with early or late onset asthma, NAA had greater % of patients with severe asthma than AANFS and AAFS (61% vs. 40% and 37% or 56% vs. 44% and 49%). The G allele of rs2872507 in <i>GSDMB</i> had higher frequency in AAFS than AANFS and NAA (0.63 vs. 0.55 and 0.55), and associated with earlier age onset and asthma severity. Early or late onset AAFS, AANFS, and NAA have shared and distinct phenotypic characteristics in children and adults. AAFS is a complex disorder involving genetic susceptibility and environmental factors.
DOI: 10.6084/m9.figshare.7472816.v1
title: Regeneration of <i>Larix sibirica</i> boreal forest patches in the forest-steppe ecotone in Gorkhi Terelj National Park, Mongolia

description: To demonstrate the dynamics of forest patches in the Mongolian forest-steppe ecotone and examine how forest structure changes with distance from the forest edge, we investigated forest structure and tree age according to two spatial scales: transects and quadrats within transects. The transects shifted with distance across the treeline and we focused on two representative tree species (<i>Larix sibirica</i> and <i>Pinus sibirica</i>) in Gorkhi Terelj National Park. Pure <i>L. sibirica</i> stands were observed in quadrats with a lower maximum tree age; in contrast, <i>P. sibirica</i> occurred only in quadrats with a maximum tree age over 100 years. This result indicated that the forest patches experienced successional changes from <i>L. sibirica</i> to <i>P. sibirica</i>. In all transects, tree stands mainly presented multiaged regeneration patterns. Disturbances such as forest fire may result in the regeneration of younger <i>L. sibirica</i>. The basal area and maximum age increased with increasing distance from the treeline. The increase in the basal area and number of <i>P. sibirica</i> saplings suggested that succession from <i>L. sibirica</i> to <i>P. sibirica</i> was more advanced in the forest interior than at the forest edge. Differences in the disturbance regime may explain the changes in forest structure that occur with increased distance from the forest edge.
DOI: 10.6084/m9.figshare.6948557
title: Additional file 1: of Omics for understanding the tolerant mechanism of Trichoderma asperellum TJ01 to organophosphorus pesticide dichlorvos

description: Impact of dichlorvos with different concentrations on TCA cycle of T. asperellum TJ01 after 24Â h treatment based on RNA-seq. Red represents up-regulated significantly, while blue represents down-regulated significantly. (XLS 7 kb)
DOI: 10.6084/m9.figshare.6948572.v1
title: Additional file 2: of Omics for understanding the tolerant mechanism of Trichoderma asperellum TJ01 to organophosphorus pesticide dichlorvos

description: Impact of 500Â Îźg/mL dichlorvos on amino acid and derivatives metabolism of T. asperellum TJ01 after 24Â h treatment based on LC-QQQ-MS and GC-TOF-MS analysis. Red represents up-regulated significantly, while blue represents down-regulated significantly. (XLS 11 kb)
DOI: 10.6084/m9.figshare.7997156
title: Additional file 2: of â Standardized patientsâ in teaching the communication skill of history-taking to four-year foreign medical undergraduates in the department of obstetrics and gynaecology

description: Raw data. (XLSX 18 kb)
DOI: 10.24403/jp.1321387
title: Zur Flora von Ostthüringen / E. Gehroldt
DOI: 10.24403/jp.1321390
title: Floristische Notizen aus Thüringen / H.-J. Zündorf
DOI: 10.24403/jp.1321392
title: Oberdorfer, E.: Pflanzensoziologische Exkursionsflora. - 5. Aufl. - Stuttgart : Verlag Eugen Ulmer, 1983 / [rezensiert von] H. Manitz
DOI: 10.6084/m9.figshare.16909933
title: Additional file 2 of Cancer-associated fibroblasts impact the clinical outcome and treatment response in colorectal cancer via immune system modulation: a comprehensive genome-wide analysis

description: Additional file 2: Data S1. The risk of each patient in the six cohorts.
DOI: 10.24403/jp.1321395
title: Görner, M., Haupt, R., Hiekel, W., Niemann, E. & Westhus, W.: Die Naturschutzgebiete der Bezirke Erfurt, Suhl und Gera. - Handbuch der Naturschutzgebiete der Deutschen Demokratischen Republik, 4. - 2. Aufl. - Leipzig, Jena, Berlin : Urania-Verlag, 1984 / [rezensiert von] H.-J. Zündorf
DOI: 10.6084/m9.figshare.7472816
title: Regeneration of <i>Larix sibirica</i> boreal forest patches in the forest-steppe ecotone in Gorkhi Terelj National Park, Mongolia

description: To demonstrate the dynamics of forest patches in the Mongolian forest-steppe ecotone and examine how forest structure changes with distance from the forest edge, we investigated forest structure and tree age according to two spatial scales: transects and quadrats within transects. The transects shifted with distance across the treeline and we focused on two representative tree species (<i>Larix sibirica</i> and <i>Pinus sibirica</i>) in Gorkhi Terelj National Park. Pure <i>L. sibirica</i> stands were observed in quadrats with a lower maximum tree age; in contrast, <i>P. sibirica</i> occurred only in quadrats with a maximum tree age over 100 years. This result indicated that the forest patches experienced successional changes from <i>L. sibirica</i> to <i>P. sibirica</i>. In all transects, tree stands mainly presented multiaged regeneration patterns. Disturbances such as forest fire may result in the regeneration of younger <i>L. sibirica</i>. The basal area and maximum age increased with increasing distance from the treeline. The increase in the basal area and number of <i>P. sibirica</i> saplings suggested that succession from <i>L. sibirica</i> to <i>P. sibirica</i> was more advanced in the forest interior than at the forest edge. Differences in the disturbance regime may explain the changes in forest structure that occur with increased distance from the forest edge.
DOI: 10.6084/m9.figshare.21628629
title: Additional file 2 of Genes related to allergen exposure in allergic rhinitis: a gene-chip-based study in a mouse model

description: Additional file 2: Table S2. Differentially expressed genes.
DOI: 10.6084/m9.figshare.21628635
title: Additional file 4 of Genes related to allergen exposure in allergic rhinitis: a gene-chip-based study in a mouse model

description: Additional file 4: Table S4. Genes corresponding to top 20 significant GO categories in 8 profiles.
DOI: 10.6084/m9.figshare.21628632
title: Additional file 3 of Genes related to allergen exposure in allergic rhinitis: a gene-chip-based study in a mouse model

description: Additional file 3: Table S3. The genes corresponding to the 21 significant pathways.
DOI: 10.6084/m9.figshare.21628632.v1
title: Additional file 3 of Genes related to allergen exposure in allergic rhinitis: a gene-chip-based study in a mouse model

description: Additional file 3: Table S3. The genes corresponding to the 21 significant pathways.
DOI: 10.6084/m9.figshare.21628626
title: Additional file 1 of Genes related to allergen exposure in allergic rhinitis: a gene-chip-based study in a mouse model

description: Additional file 1: Table S1. Primers used for qRT-PCR.
DOI: 10.6084/m9.figshare.7997156.v1
title: Additional file 2: of â Standardized patientsâ in teaching the communication skill of history-taking to four-year foreign medical undergraduates in the department of obstetrics and gynaecology

description: Raw data. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.6948524.v1
title: Additional file 6: of SPAG5 interacts with CEP55 and exerts oncogenic activities via PI3K/AKT pathway in hepatocellular carcinoma

description: Table S1. The top 50 genes co-expressing with SPAG5 in HCC samples were shown. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.6948596
title: Additional file 3: of Omics for understanding the tolerant mechanism of Trichoderma asperellum TJ01 to organophosphorus pesticide dichlorvos

description: Impact of 500Â Îźg/mL dichlorvos on carbohydrate metabolism of T. asperellum TJ01 after 24Â h treatment based on LC-QQQ-MS and GC-TOF-MS analysis. Red represents up-regulated significantly, while blue represents down-regulated significantly. (XLS 9 kb)
DOI: 10.6084/m9.figshare.6948614
title: Additional file 4: of Omics for understanding the tolerant mechanism of Trichoderma asperellum TJ01 to organophosphorus pesticide dichlorvos

description: Impact of 500Â Îźg/mL dichlorvos on lipid metabolism of T. asperellum TJ01 after 24Â h treatment based on LC-QQQ-MS and GC-TOF-MS analysis. Red represents up-regulated significantly, while blue represents down-regulated significantly. (XLS 11 kb)
DOI: 10.6084/m9.figshare.6948614.v1
title: Additional file 4: of Omics for understanding the tolerant mechanism of Trichoderma asperellum TJ01 to organophosphorus pesticide dichlorvos

description: Impact of 500Â Îźg/mL dichlorvos on lipid metabolism of T. asperellum TJ01 after 24Â h treatment based on LC-QQQ-MS and GC-TOF-MS analysis. Red represents up-regulated significantly, while blue represents down-regulated significantly. (XLS 11 kb)
DOI: 10.6084/m9.figshare.7997195
title: Additional file 9: of Comparative analysis of miniature invertedâ repeat transposable elements (MITEs) and long terminal repeat (LTR) retrotransposons in six Citrus species

description: Data Set S2. The seed file of LTR retrotransposons. (FA 2229 kb)
DOI: 10.6084/m9.figshare.7997189
title: Additional file 8: of Comparative analysis of miniature invertedâ repeat transposable elements (MITEs) and long terminal repeat (LTR) retrotransposons in six Citrus species

description: Data Set S1. The seed file of MITEs. (FA 43 kb)
DOI: 10.15156/bio/sh2837324.08fu
title: SH2837324.08FU

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.