cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3604895_d3
title: Additional file 3: Table S3. of Comparative genome analysis of Mycoplasma pneumoniae

description: Variants in the P1 gene excluding the large variation region (nucleotides 181509-181906), relative to the M129 reference strain. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3604895_d2
title: Additional file 1: Table S1. of Comparative genome analysis of Mycoplasma pneumoniae

description: Initial assembly characteristics. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3604895_d1
title: Additional file 4: Table S4. of Comparative genome analysis of Mycoplasma pneumoniae

description: Variants in ORF6 excluding the large variation region (nucleotides 186572-187144), relative to the M129 reference strain. (XLSX 11Â kb)
DOI: 10.17632/92v9vzth8v.1
title: Data for: The 18S–25S ribosomal RNA unit of yerba mate (Ilex paraguariensis A. St.-Hil.)

description: This dataset contains the supplementary material of the article at Plant Biosystems entitled "The 18S–25S ribosomal RNA unit of yerba mate (Ilex paraguariensis A. St.-Hil.)" by Aguilera et al. The dataset consists of 8 files. By the time this article was published this dataset was deposited at "https://drive.google.com/folderview?id=0B3Hl6DDYmVW6Q2d2MHRQdUJFRTQ&usp=sharing", however this link is currently is unavailable.
DOI: 10.6084/m9.figshare.c.3604346_d5
title: Additional file 2: of A probabilistic generative model for quantification of DNA modifications enables analysis of demethylation pathways

description: A small example data set. (TBZ2 8 kb)
DOI: 10.6084/m9.figshare.c.3604346_d3
title: Additional file 1: of A probabilistic generative model for quantification of DNA modifications enables analysis of demethylation pathways

description: A Stan implementation of the Lux method with documentation and a preprocessed data set. (TBZ2 9 kb)
DOI: 10.6084/m9.figshare.c.3604256_d1
title: Additional file 1: of A safety study of transumbilical single incision versus conventional laparoscopic surgery for colorectal cancer: study protocol for a randomized controlled trial

description: Operation procedure 1-6. (ZIP 89284 kb)
DOI: 10.6084/m9.figshare.c.3604232_d2
title: Additional file 1: of Induction of ROS generation and NF-ÎşB activation in MARC-145 cells by a novel porcine reproductive and respiratory syndrome virus in Southwest of China isolate

description: Each ORF initial site of YN-2011.
DOI: 10.6084/m9.figshare.c.3604232_d3
title: Additional file 2: of Induction of ROS generation and NF-ÎşB activation in MARC-145 cells by a novel porcine reproductive and respiratory syndrome virus in Southwest of China isolate

description: The whole genome of YN-2011.
DOI: 10.6084/m9.figshare.c.3604232_d1
title: Additional file 3: of Induction of ROS generation and NF-ÎşB activation in MARC-145 cells by a novel porcine reproductive and respiratory syndrome virus in Southwest of China isolate

description: Each ORF gene nucleotide sequence of YN-2011.
DOI: 10.6084/m9.figshare.c.3603533_d5
title: Additional file 4: Table S4. of The contribution of Alu exons to the human proteome

description: List of RT-PCR primers. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3603548_d1
title: Additional file 1: of Salvianolic acid B induced upregulation of miR-30a protects cardiac myocytes from ischemia/reperfusion injury

description: Availability of supporting data. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3603533_d4
title: Additional file 3: Table S3. of The contribution of Alu exons to the human proteome

description: Seventy-six putative coding Alu exons with at least 10 reads mapped to one of the three splice junctions in both Ribo-seq and RNA-seq data from HeLa cells. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3603533_d3
title: Additional file 2: Table S2. of The contribution of Alu exons to the human proteome

description: Eighty-five putative coding Alu exons with peptide evidence from the PRIDE database. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3603533_d2
title: Additional file 1: Table S1. of The contribution of Alu exons to the human proteome

description: Fifty-two putative coding Alu exons with moderate-to-high levels of exon splicing or differential splicing activities among human tissues. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3603080_d4
title: Additional file 1: Table S1. of Porcine methionine sulfoxide reductase B3: molecular cloning, tissue-specific expression profiles, and polymorphisms associated with ear size in Sus scrofa

description: Amino acids encoded by the porcine MSRB3 gene. (XLS 23Â kb)
DOI: 10.6084/m9.figshare.c.3603068_d5
title: Additional file 2: Table S2. of Genome-wide expression profiling of microRNAs in poplar upon infection with the foliar rust fungus Melampsora larici-populina

description: Novel miRNAs identified in the three P. szechuanica libraries. (XLSX 110Â kb)
DOI: 10.6084/m9.figshare.c.3603068_d4
title: Additional file 1: Table S1. of Genome-wide expression profiling of microRNAs in poplar upon infection with the foliar rust fungus Melampsora larici-populina

description: Known miRNAs identified in the three P. szechuanica libraries. (XLSX 77Â kb)
DOI: 10.6084/m9.figshare.c.3603068_d3
title: Additional file 5: Table S4. of Genome-wide expression profiling of microRNAs in poplar upon infection with the foliar rust fungus Melampsora larici-populina

description: miRNAs and primer sequences for qRT-PCR. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3603068_d2
title: Additional file 4: Table S3. of Genome-wide expression profiling of microRNAs in poplar upon infection with the foliar rust fungus Melampsora larici-populina

description: Differentially expressed miRNAs from P. szechuanica and target gene functional annotations. (XLSX 31Â kb)
DOI: 10.6084/m9.figshare.c.3602654_d6
title: Additional file 5: Table S4. of Genome-wide analysis of the TPX2 family proteins in Eucalyptus grandis

description: The Ka/Ks ratios and Evolutionary selection of paralogous TPX2 family proteins. Ks: number of synonymous substitutions per synonymous site; Ka: number of nonsynonymous substitutions per nonsynonymous site. When Ka/Ks = 1, neutral evolution; Ka/Ks  1, diversifying selection. Genes in duplicated pairs are in tandem duplication (Tandem), in homeologous chromosomes (Homeologous) or were simply paralogous. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3602654_d5
title: Additional file 6: Table S5. of Genome-wide analysis of the TPX2 family proteins in Eucalyptus grandis

description: Primer sequences for 13 genes for RT-qPCR analysis. EgCDK8 was used as a reference gene while others are Eucalyptus TPX2 family genes. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3602660_d3
title: Additional file 14: Table S8. of A multi-omic analysis of human naĂŻve CD4+ T cells

description: A list of known and novel signal peptide cleavage sites identified for membrane/secreted proteins expressed in naĂŻve CD4+ T cells. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3602660_d2
title: Additional file 9: Table S5. of A multi-omic analysis of human naĂŻve CD4+ T cells

description: A list of uncharacterized proteins annotated as open reading frames in public databases that were identified in naĂŻve CD4+ T cells. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3602654_d3
title: Additional file 3: Table S2. of Genome-wide analysis of the TPX2 family proteins in Eucalyptus grandis

description: Distribution of PFAM plant TPX2 proteins in various clades. A complete list of number of sequences in each clade (clade 1â  6) is presented. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3602654_d2
title: Additional file 2: Table S1. of Genome-wide analysis of the TPX2 family proteins in Eucalyptus grandis

description: TPX2 proteins in plants (Viridiplantae). 574 of these Plant TPX2 proteins were from 45 different species of plants (Viridiplantae) and were used for producing the phylogenetic tree shown in Fig.Â 1. These sequences were classified into 6 groups (clade 1â  6). (XLSX 325Â kb)
DOI: 10.6084/m9.figshare.c.3602654_d1
title: Additional file 4: Table S3. of Genome-wide analysis of the TPX2 family proteins in Eucalyptus grandis

description: Genome-wide analysis of Arabidopsis and Eucalyptus TPX2 genes. Gene name, locus ID and the clade number in the phylogenetic tree (Fig.Â 1) are shown. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3602540_d4
title: Additional file 4: Figure S3. of Comparison of detection methods and follow-up study on the tyrosine kinase inhibitors therapy in non-small cell lung cancer patients with ROS1 fusion rearrangement

description: The details of follow-up studies. (ZIP 16.5 mb)
DOI: 10.6084/m9.figshare.c.3602540_d5
title: Additional file 2: Figure S1. of Comparison of detection methods and follow-up study on the tyrosine kinase inhibitors therapy in non-small cell lung cancer patients with ROS1 fusion rearrangement

description: Direct sequencing of the six cases with ROS1 rearrangement. (ZIP 4.08 mb)
DOI: 10.6084/m9.figshare.c.3602540_d2
title: Additional file 3: Figure S2. of Comparison of detection methods and follow-up study on the tyrosine kinase inhibitors therapy in non-small cell lung cancer patients with ROS1 fusion rearrangement

description: The IHC staining patterns of ROS1 rearrangement cases and non-rearrangement cases. (ZIP 7.10 mb)
DOI: 10.6084/m9.figshare.c.3602540_d3
title: Additional file 5: of Comparison of detection methods and follow-up study on the tyrosine kinase inhibitors therapy in non-small cell lung cancer patients with ROS1 fusion rearrangement

description: Public data. The dataset of the experiment. (XLS 86 kb)
DOI: 10.6084/m9.figshare.c.3602150_d6
title: Additional file 3: of 
                     De novo transcriptome sequencing and analysis of Coccinella septempunctata L. in non-diapause, diapause and diapause-terminated states to identify diapause-associated genes

description: S3-Significantly enriched KEGG pathways in D vs. ND and DT vs. D. (XLSX 16.6 kb)
DOI: 10.6084/m9.figshare.c.3602156_d3
title: Additional file 6: Table S5. of Transcriptome profiling analysis for two Tibetan wild barley genotypes in responses to low nitrogen

description: DEGs at 6Â h and 48Â h after low N treatment in XZ56. (XLSX 70Â kb)
DOI: 10.6084/m9.figshare.c.3602150_d5
title: Additional file 1: of 
                     De novo transcriptome sequencing and analysis of Coccinella septempunctata L. in non-diapause, diapause and diapause-terminated states to identify diapause-associated genes

description: S1-Unigene expression. (XLSX 4.86 mb)
DOI: 10.6084/m9.figshare.c.3602156_d2
title: Additional file 5: Table S4. of Transcriptome profiling analysis for two Tibetan wild barley genotypes in responses to low nitrogen

description: DEGs at 6Â h and 48Â h after low N treatment in XZ149. (XLSX 160Â kb)
DOI: 10.6084/m9.figshare.c.3602150_d4
title: Additional file 5: of 
                     De novo transcriptome sequencing and analysis of Coccinella septempunctata L. in non-diapause, diapause and diapause-terminated states to identify diapause-associated genes

description: S5-Diapause-associated genes of interest. (XLSX 12.0 kb)
DOI: 10.6084/m9.figshare.c.3602150_d3
title: Additional file 4: of 
                     De novo transcriptome sequencing and analysis of Coccinella septempunctata L. in non-diapause, diapause and diapause-terminated states to identify diapause-associated genes

description: S4-Differentially expressed genes involved in fatty acid biosynthesis and cell cycle pathways. (XLSX 11.8 kb)
DOI: 10.6084/m9.figshare.c.3602150_d1
title: Additional file 6: of 
                     De novo transcriptome sequencing and analysis of Coccinella septempunctata L. in non-diapause, diapause and diapause-terminated states to identify diapause-associated genes

description: S6-The primer of qRT-PCR. (XLSX 10.3 kb)
DOI: 10.6084/m9.figshare.24798291.v1
title: Patterns and consequences of plant trait variation: roles of plant spatial patterns, diversity, and drought

description: The diversity and spatial patterns of plants and environmental severity can influence plant‒plant interactions critical to generating trait variation in plants; however, how plant spatial patterns interact with plant diversity to shape intra- and interspecific trait variation and, in turn, shape plant performance and whether the conclusion varies between productive and severe environments remain unclear. To address this gap, we manipulated plant spatial patterns and diversity in an old field simultaneously under ambient watering and drought conditions. We collected data on leaf traits related to resource acquisition (leaf area, specific leaf area and leaf chlorophyll content) and those related to the conversion of acquired resources to masses (leaf dry matter content and leaf thickness) paired with plant performance (cf. plant biomass). We found a positive association between multitrait intra- or interspecific variation and plant diversity across ambient watering and drought conditions and a slightly lower degree of multitrait intraspecific variation for spatially structured (i.e., positively or negatively autocorrelated) plants than randomly occurring plants under ambient watering. Although multitrait interspecific variation did not vary between ambient watering and drought conditions, the multitrait intraspecific variation was significantly higher under drought than ambient watering conditions. Intriguingly, interspecific variation in resource acquisition-related traits (important for niche difference) was positively associated with plant performance across ambient watering and drought conditions, while intra- and interspecific variations in resource conversion-related traits (important for plant growth and persistence) were negatively associated with plant performance. However, when all traits were lumped, intra- or interspecific variation was negatively associated with plant performance, signaling a competitive hierarchy. Patterns and mechanistic interpretation of the trait variation-plant performance association may thus depend on trait choice and environmental contexts. Overall, this study presents one of the first experimental demonstrations of the joint effects of plant spatial patterns and diversity on plant trait variation and its consequences for plant performance in contrasting environments. Although the patterns and consequences of intra- and interspecific trait variations seem context-dependent (i.e., individual traits and environment-dependent), looking into trait variation through resource acquisition versus resource conversion axes can offer useful insights valuable for the progress of trait ecology.
DOI: 10.6084/m9.figshare.24798291
title: Patterns and consequences of plant trait variation: roles of plant spatial patterns, diversity, and drought

description: The diversity and spatial patterns of plants and environmental severity can influence plant‒plant interactions critical to generating trait variation in plants; however, how plant spatial patterns interact with plant diversity to shape intra- and interspecific trait variation and, in turn, shape plant performance and whether the conclusion varies between productive and severe environments remain unclear. To address this gap, we manipulated plant spatial patterns and diversity in an old field simultaneously under ambient watering and drought conditions. We collected data on leaf traits related to resource acquisition (leaf area, specific leaf area and leaf chlorophyll content) and those related to the conversion of acquired resources to masses (leaf dry matter content and leaf thickness) paired with plant performance (cf. plant biomass). We found a positive association between multitrait intra- or interspecific variation and plant diversity across ambient watering and drought conditions and a slightly lower degree of multitrait intraspecific variation for spatially structured (i.e., positively or negatively autocorrelated) plants than randomly occurring plants under ambient watering. Although multitrait interspecific variation did not vary between ambient watering and drought conditions, the multitrait intraspecific variation was significantly higher under drought than ambient watering conditions. Intriguingly, interspecific variation in resource acquisition-related traits (important for niche difference) was positively associated with plant performance across ambient watering and drought conditions, while intra- and interspecific variations in resource conversion-related traits (important for plant growth and persistence) were negatively associated with plant performance. However, when all traits were lumped, intra- or interspecific variation was negatively associated with plant performance, signaling a competitive hierarchy. Patterns and mechanistic interpretation of the trait variation-plant performance association may thus depend on trait choice and environmental contexts. Overall, this study presents one of the first experimental demonstrations of the joint effects of plant spatial patterns and diversity on plant trait variation and its consequences for plant performance in contrasting environments. Although the patterns and consequences of intra- and interspecific trait variations seem context-dependent (i.e., individual traits and environment-dependent), looking into trait variation through resource acquisition versus resource conversion axes can offer useful insights valuable for the progress of trait ecology.
DOI: 10.6084/m9.figshare.c.3601415_d9
title: Additional file 6: File S1. of A rapid and affordable screening platform for membrane protein trafficking

description: Johnâ  s Hopkins Clinical Compound Library. Lgr5 IRFAP-HTS results provided in a Microsoft Excel Spreadsheet with three worksheets that include (Description) the experimental overview, (Data) Raw and Analyzed data, (PivotTable) and a pivot table for data mining and determination of hits. (XLS 1334 kb)
DOI: 10.6084/m9.figshare.c.3601415_d6
title: Additional file 8: File S3. of A rapid and affordable screening platform for membrane protein trafficking

description: Prestwick Library. Lgr5 IRFAP-HTS results provided in a Microsoft Excel Spreadsheet with three worksheets that include: (Description) the experimental overview, (Data) Raw and Analyzed data, (PivotTable) and a pivot table for data mining and determination of hits. (XLSX 344 kb)
DOI: 10.6084/m9.figshare.c.3601415_d7
title: Additional file 9: File S4. of A rapid and affordable screening platform for membrane protein trafficking

description: Sigma Kinase Library. Lgr5 IRFAP-HTS results provided in a Microsoft Excel Spreadsheet with three worksheets that include: (Description) the experimental overview, (Data) Raw and Analyzed data, (PivotTable) and a pivot table for data mining and determination of hits. (XLS 218 kb)
DOI: 10.6084/m9.figshare.c.3601415_d4
title: Additional file 10: File S5. of A rapid and affordable screening platform for membrane protein trafficking

description: ActProb5K Library. Lgr5 IRFAP-HTS results provided in a Microsoft Excel Spreadsheet with three worksheets that include: (Description) the experimental overview, (Data) Raw and Analyzed data, (PivotTable) and a pivot table for data mining and determination of hits. (XLSX 2266 kb)
DOI: 10.6084/m9.figshare.c.3601415_d2
title: Additional file 7: File S2. of A rapid and affordable screening platform for membrane protein trafficking

description: Kinase Gold Library. Lgr5 IRFAP-HTS results provided in a Microsoft Excel Spreadsheet with three worksheets that include: (Description) the experimental overview, (Data) Raw and Analyzed data, (PivotTable) and a pivot table for data mining and determination of hits. (XLS 2999 kb)
DOI: 10.6084/m9.figshare.c.3600731_d6
title: Additional file 1: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: Primers and sequences for RT-qPCR analysis (XLS 12 kb)
DOI: 10.6084/m9.figshare.c.3600731_d7
title: Additional file 9: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: Novel miRNAs identified in this study. Note: The data in this supplementary file can be seen in the Excel spreadsheet.
DOI: 10.6084/m9.figshare.c.3600731_d5
title: Additional file 3: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: The known miRNA expression profiles between two libraries. Note: The data in this supplementary file can be seen in the Excel spreadsheet.
DOI: 10.6084/m9.figshare.c.3600731_d4
title: Additional file 2: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: Bovine conserved miRNAs. Note: The data in this supplementary file can be seen in the Excel spreadsheet. (XLS 273 kb)
DOI: 10.6084/m9.figshare.c.3600731_d2
title: Additional file 10: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: The novel miRNA expression profiles between two libraries. Note: The data in this supplementary file can be seen in the Excel spreadsheet.
DOI: 10.6084/m9.figshare.c.3600731_d1
title: Additional file 8: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: Family analyses of known miRNAs. Note: The data in this supplementary file can be seen in the Excel spreadsheet.
DOI: 10.6084/m9.figshare.c.3600725_d1
title: Additional file 2: of Temperature expression patterns of genes and their coexpression with LncRNAs revealed by RNA-Seq in non-heading Chinese cabbage

description: Tables S1-S15. (XLS 9790 kb)
DOI: 10.6084/m9.figshare.c.3600629_d5
title: Additional file 2: Table S2. of Bacterial communities in penile skin, male urethra, and vaginas of heterosexual couples with and without bacterial vaginosis

description: Metadata from male sexual partners. (XLS 60Â kb)
DOI: 10.6084/m9.figshare.c.3600629_d4
title: Additional file 5: Table S4. of Bacterial communities in penile skin, male urethra, and vaginas of heterosexual couples with and without bacterial vaginosis

description: Taxonomic assignments of 16S rRNA sequences obtained from penile skin, urethral, and vaginal specimens. (XLSX 445Â kb)
DOI: 10.6084/m9.figshare.c.3600647_d1
title: Additional file 2: Figure S3. of Ginsenoside Rg1 protects starving H9c2 cells by dissociation of Bcl-2-Beclin1 complex

description: The effect of CQ on different time points. The LC3 level significantly increased at 90 min (*p
DOI: 10.6084/m9.figshare.c.3600629_d3
title: Additional file 1: Table S1. of Bacterial communities in penile skin, male urethra, and vaginas of heterosexual couples with and without bacterial vaginosis

description: Metadata from female patients. (XLS 72Â kb)
DOI: 10.6084/m9.figshare.28021436
title: The complete sequence of the chloroplast genome of <i>Achillea ptarmica</i> using long read sequencing

description: The raw data of the research 'The complete sequence of the chloroplast genome of <i>Achillea ptarmica</i> using long read sequencing'
DOI: 10.6084/m9.figshare.c.3600290_d13
title: Additional file 6: Table S5. of Gene expression profile indicates involvement of NO in Camellia sinensis pollen tube growth at low temperature

description: GO classification of DEGs identified from the comparison between control (CK) and NO-treated (NO) pollen tubes. (XLS 40 kb)
DOI: 10.6084/m9.figshare.c.3600311_d5
title: Additional file 4: of Liver transcriptome response to hyperthermic stress in three distinct chicken lines

description: List of shared differentially expresses genes among 3 genetic lines (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3600290_d10
title: Additional file 5: Table S4. of Gene expression profile indicates involvement of NO in Camellia sinensis pollen tube growth at low temperature

description: GO classification of DEGs identified from the comparison between control (CK) and 4Â Â°C-treated (LT) pollen tubes. (XLS 52 kb)
DOI: 10.6084/m9.figshare.c.3600299_d6
title: MOESM2 of Differential urinary glycoproteome analysis of type 2 diabetic nephropathy using 2D-LCâ  MS/MS and iTRAQ quantification

description: Additional file 2. The iBAQ value and N-linked glycoprotein annotation of all identifications.