cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5601517
title: Nardus stricta leaf transcriptome

description: De novo transcriptome assembly of Nardus stricta based on leaf RNAseq data (SRA ERR1744596, ERR1744597, ERR1744598, ERR1744599, ERR1744600, ERR1744601, ERR1744602, ERR1744603). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601526
title: Phalaris arundinacea leaf transcriptome

description: De novo transcriptome assembly of Phalaris arundinacea based on leaf RNAseq data (SRA ERR1777669, ERR1777670, ERR1777671, ERR1777672, ERR1777673, ERR1777674, ERR1777675, ERR1777676). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2 --normalize_max_read_cov 20" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601550
title: Poa annua leaf transcriptome

description: De novo transcriptome assembly of Poa annua based on leaf RNAseq data (SRA SRR1633980). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2 --normalize_max_read_cov 20" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601565.v1
title: Achnatherum splendens leaf transcriptome

description: De novo transcriptome assembly of Achnatherum splendens based on leaf RNAseq data (SRA SRR3089957, SRR3089983, SRR3089986). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601622.v2
title: Data Available for 'Generic Approach to Access Barriers in Dehydrogenation Reactions'

description: Data sources for plotting the figures in the article.In the file name, term 'TSS' means transition state scaling relation; term 'GX' means the Gamma (slope) and Xi (intercept) functions.
DOI: 10.6084/m9.figshare.5601505
title: Melica nutans leaf transcriptome

description: De novo transcriptome assembly of Melica nutans based on leaf RNAseq data (SRA ERR1744575, ERR1744576, ERR1744577, ERR1744578, ERR1744579, ERR1744580, ERR1744581, ERR1744582, ERR1744583, ERR1744584, ERR1744585, ERR1744586, ERR1744587, ERR1744588, ERR1744589, ERR1744590, ERR1744591, ERR1744592, ERR1744593, ERR1744594, ERR1744595). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601499
title: Festuca pratensis leaf transcriptome

description: De novo transcriptome assembly of Festuca pratensis based on leaf RNAseq data (SRA SRR3096274, SRR3096275, SRR3096290, SRR3096312, SRR3096315, SRR3096651). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601502
title: Holcus lanatus leaf transcriptome

description: De novo transcriptome assembly of Holcus lanatus based on leaf RNAseq data (SRA ERR294007, ERR294008, ERR294009, ERR294010, ERR294011, ERR294012, ERR294013, ERR294014, ERR294016, ERR294017). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2 --normalize_max_read_cov 20" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601526.v1
title: Phalaris arundinacea leaf transcriptome

description: De novo transcriptome assembly of Phalaris arundinacea based on leaf RNAseq data (SRA ERR1777669, ERR1777670, ERR1777671, ERR1777672, ERR1777673, ERR1777674, ERR1777675, ERR1777676). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2 --normalize_max_read_cov 20" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601436
title: Dactylis glomerata leaf transcriptome

description: De novo transcriptome assembly of Dactylis glomerata based on leaf RNAseq data (SRA ERR1777661, ERR1777664, ERR1777666). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601499.v1
title: Festuca pratensis leaf transcriptome

description: De novo transcriptome assembly of Festuca pratensis based on leaf RNAseq data (SRA SRR3096274, SRR3096275, SRR3096290, SRR3096312, SRR3096315, SRR3096651). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601502.v1
title: Holcus lanatus leaf transcriptome

description: De novo transcriptome assembly of Holcus lanatus based on leaf RNAseq data (SRA ERR294007, ERR294008, ERR294009, ERR294010, ERR294011, ERR294012, ERR294013, ERR294014, ERR294016, ERR294017). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2 --normalize_max_read_cov 20" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601550.v1
title: Poa annua leaf transcriptome

description: De novo transcriptome assembly of Poa annua based on leaf RNAseq data (SRA SRR1633980). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2 --normalize_max_read_cov 20" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601418
title: Agrostis stolonifera leaf transcriptome

description: De novo transcriptome assembly of Agrostis stolonifera based on leaf RNAseq data (SRA SRR5309260, SRR5309261, SRR5309262). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601427
title: Bromus inermis leaf transcriptome

description: De novo transcriptome assembly of Bromus inermis based on leaf RNAseq data (SRA SRR3087621). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601436.v1
title: Dactylis glomerata leaf transcriptome

description: De novo transcriptome assembly of Dactylis glomerata based on leaf RNAseq data (SRA ERR1777661, ERR1777664, ERR1777666). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601505.v1
title: Melica nutans leaf transcriptome

description: De novo transcriptome assembly of Melica nutans based on leaf RNAseq data (SRA ERR1744575, ERR1744576, ERR1744577, ERR1744578, ERR1744579, ERR1744580, ERR1744581, ERR1744582, ERR1744583, ERR1744584, ERR1744585, ERR1744586, ERR1744587, ERR1744588, ERR1744589, ERR1744590, ERR1744591, ERR1744592, ERR1744593, ERR1744594, ERR1744595). Trinity v2.4.0 was used for assembly using default parameters, with the exception of the parameters "--min_kmer_cov 2" and Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601388
title: Agropyron cristatum leaf transcriptome

description: De novo transcriptome assembly of Agropyron cristatum based on leaf RNAseq data (SRA SRR3087732). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br><br>
DOI: 10.6084/m9.figshare.5601412
title: Agropyron desertorum leaf transcriptome

description: De novo transcriptome assembly of Agropyron desertorum based on leaf RNAseq data (SRA SRR3087737). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601388.v1
title: Agropyron cristatum leaf transcriptome

description: De novo transcriptome assembly of Agropyron cristatum based on leaf RNAseq data (SRA SRR3087732). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br><br>
DOI: 10.6084/m9.figshare.5601418.v1
title: Agrostis stolonifera leaf transcriptome

description: De novo transcriptome assembly of Agrostis stolonifera based on leaf RNAseq data (SRA SRR5309260, SRR5309261, SRR5309262). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601427.v1
title: Bromus inermis leaf transcriptome

description: De novo transcriptome assembly of Bromus inermis based on leaf RNAseq data (SRA SRR3087621). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5601412.v1
title: Agropyron desertorum leaf transcriptome

description: De novo transcriptome assembly of Agropyron desertorum based on leaf RNAseq data (SRA SRR3087737). Trinity v2.4.0 was used for assembly using default parameters were used, with Trimmomatic for trimming of reads before assembly.<br>
DOI: 10.6084/m9.figshare.5598961
title: VOILA 2015 Supplement - Data Science Skills - Ontology-Guided, Visual Exploration

description: Supplementary snapshots for the publication <br>Dadzie, A.-S., Domingue, J. (2015). Visual Exploration of Formal Requirements for Data Science Demand Analysis, at the ISWC 2015 Workshop Visualizations and User Interfaces for Ontologies and Linked Data (VOILA 2015), Bethlehem, Pennsylvania, USA, pp.1-12.<br>
DOI: 10.6084/m9.figshare.5598979
title: Index file - Supplements for paper 'Structuring Visual Exploratory Analysis of Skill Demand'

description: file index
DOI: 10.6084/m9.figshare.5598943
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S13
DOI: 10.6084/m9.figshare.5598943.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S13
DOI: 10.6084/m9.figshare.5598934
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S10
DOI: 10.6084/m9.figshare.5598937
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S2
DOI: 10.6084/m9.figshare.5598940
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S4
DOI: 10.6084/m9.figshare.5598928
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S1
DOI: 10.6084/m9.figshare.5598931
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S14
DOI: 10.6084/m9.figshare.5598937.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S2
DOI: 10.6084/m9.figshare.5598940.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S4
DOI: 10.6084/m9.figshare.5598925
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S8
DOI: 10.6084/m9.figshare.5598928.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S1
DOI: 10.6084/m9.figshare.5598934.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S10
DOI: 10.6084/m9.figshare.5598922
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S5
DOI: 10.6084/m9.figshare.5598925.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S8
DOI: 10.6084/m9.figshare.5598931.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S14
DOI: 10.6084/m9.figshare.5598916
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S7
DOI: 10.6084/m9.figshare.5598919
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S9
DOI: 10.6084/m9.figshare.5598910
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S3
DOI: 10.6084/m9.figshare.5598919.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S9
DOI: 10.6084/m9.figshare.5598922.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S5
DOI: 10.6084/m9.figshare.5598904
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S12
DOI: 10.6084/m9.figshare.5598907
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S11
DOI: 10.6084/m9.figshare.5598916.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S7
DOI: 10.6084/m9.figshare.5598910.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S3
DOI: 10.6084/m9.figshare.5598895
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S2
DOI: 10.6084/m9.figshare.5598907.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S11
DOI: 10.6084/m9.figshare.5598898
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S4
DOI: 10.6084/m9.figshare.5598901
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S6
DOI: 10.6084/m9.figshare.5598904.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S12
DOI: 10.6084/m9.figshare.5598895.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S2
DOI: 10.6084/m9.figshare.5598898.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S4
DOI: 10.6084/m9.figshare.5598901.v1
title: Supplementary Data Kilinc et al 2017 from Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean

description: Supplementary Table S6
DOI: 10.6084/m9.figshare.5598859
title: Supplementary Tables 1-4 from Associations between imprinted gene expression in the placenta, human fetal growth and preeclampsia

description: Lists of imprinted genes.
DOI: 10.6084/m9.figshare.5598826
title: Stickleback pelvic reduction

description: Reimchen hypothesized that pelvic reduction in threespine stickleback is favored by an absence of piscivorous fishes and the resulting increase in predation by insects, but Giles hypothesized that the predation regime is unimportant and that a low dissolved calcium concentration favors evolution of pelvic reduction. Substantial pelvic reduction in threespine stickleback sampled from 179 lakes around Cook Inlet, Alaska is strongly associated both with an absence of predatory fishes and a low calcium concentration. However, the association of pelvic reduction with low calcium concentration appears to be contingent on the absence of predatory fishes. These results emphasize the importance of interactions between seemingly unrelated environmental variables for selection of a single trait. However, these results also conflict with some observations elsewhere and do not rule out the possibility that other environmental factors are important for selection for pelvic reduction in threespine stickleback.
DOI: 10.6084/m9.figshare.5598859.v1
title: Supplementary Tables 1-4 from Associations between imprinted gene expression in the placenta, human fetal growth and preeclampsia

description: Lists of imprinted genes.
DOI: 10.6084/m9.figshare.5598814
title: infant EEG data

description: see PLOS One publication "Electroencephalography power and coherence changes with age and motor skill development across the first half year of life" by Xiao, Shida-Tokeshi, Vanderbilt, Smith.
DOI: 10.6084/m9.figshare.5598808
title: A Cheap Trick to Improve the Power of a Conservative Hypothesis Test

description: Critical values and <i>p</i>-values of statistical hypothesis tests are often derived using asymptotic approximations of sampling distributions. However, this sometimes results in tests that are conservative (i.e., understate the frequency of an incorrectly rejected null hypothesis by employing too stringent of a threshold for rejection). Although computationally rigorous options (e.g., the bootstrap) are available for such situations, we illustrate that simple transformations can be used to improve both the size and power of such tests. Using a logarithmic transformation, we show that the transformed statistic is asymptotically equivalent to its untransformed analogue under the null hypothesis and is divergent from the untransformed version under the alternative (yielding a potentially substantial increase in power). The transformation is applied to several easily-accessible statistical hypothesis tests, a few of which are taught in introductory statistics courses. With theoretical arguments and simulations, we illustrate that the log transformation is preferable to other forms of correction (such as statistics that use a multiplier). Finally, we illustrate application of the method to a well-known dataset. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5598826.v2
title: Stickleback pelvic reduction

description: Reimchen hypothesized that pelvic reduction in threespine stickleback is favored by an absence of piscivorous fishes and the resulting increase in predation by insects, but Giles hypothesized that the predation regime is unimportant and that a low dissolved calcium concentration favors evolution of pelvic reduction. Substantial pelvic reduction in threespine stickleback sampled from 179 lakes around Cook Inlet, Alaska is strongly associated both with an absence of predatory fishes and a low calcium concentration. However, the association of pelvic reduction with low calcium concentration appears to be contingent on the absence of predatory fishes. These results emphasize the importance of interactions between seemingly unrelated environmental variables for selection of a single trait. However, these results also conflict with some observations elsewhere and do not rule out the possibility that other environmental factors are important for selection for pelvic reduction in threespine stickleback.
DOI: 10.6084/m9.figshare.5598808.v1
title: A Cheap Trick to Improve the Power of a Conservative Hypothesis Test

description: Critical values and <i>p</i>-values of statistical hypothesis tests are often derived using asymptotic approximations of sampling distributions. However, this sometimes results in tests that are conservative (i.e., understate the frequency of an incorrectly rejected null hypothesis by employing too stringent of a threshold for rejection). Although computationally rigorous options (e.g., the bootstrap) are available for such situations, we illustrate that simple transformations can be used to improve both the size and power of such tests. Using a logarithmic transformation, we show that the transformed statistic is asymptotically equivalent to its untransformed analogue under the null hypothesis and is divergent from the untransformed version under the alternative (yielding a potentially substantial increase in power). The transformation is applied to several easily-accessible statistical hypothesis tests, a few of which are taught in introductory statistics courses. With theoretical arguments and simulations, we illustrate that the log transformation is preferable to other forms of correction (such as statistics that use a multiplier). Finally, we illustrate application of the method to a well-known dataset. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5598784
title: Weighted NPMLE for the Subdistribution of a Competing Risk

description: Direct regression modeling of the subdistribution has become popular for analyzing data with multiple, competing event types. All general approaches so far are based on nonlikelihood-based procedures and target covariate effects on the subdistribution. We introduce a novel weighted likelihood function that allows for a direct extension of the Fine–Gray model to a broad class of semiparametric regression models. The model accommodates time-dependent covariate effects on the subdistribution hazard. To motivate the proposed likelihood method, we derive standard nonparametric estimators and discuss a new interpretation based on pseudo risk sets. We establish consistency and asymptotic normality of the estimators and propose a sandwich estimator of the variance. In comprehensive simulation studies, we demonstrate the solid performance of the weighted nonparametric maximum likelihood estimation in the presence of independent right censoring. We provide an application to a very large bone marrow transplant dataset, thereby illustrating its practical utility. Supplementary materials for this article are available online.