cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5742441
title: Additional file 7: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: S. phureja mRNAs corresponding to resistance genes predicted in the reference S. tuberosum genome (Jupe et al. [46]). (XLSX 62Â kb)
DOI: 10.6084/m9.figshare.5742441.v1
title: Additional file 7: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: S. phureja mRNAs corresponding to resistance genes predicted in the reference S. tuberosum genome (Jupe et al. [46]). (XLSX 62Â kb)
DOI: 10.6084/m9.figshare.12895264
title: Additional file 2 of Association of the functional ovarian reserve with serum metabolomic profiling by nuclear magnetic resonance spectroscopy: a cross-sectional study of ~ 400 women

description: Additional file 2: Table S4. Adjusted associations of metabolites with AMH in original units. Table S5. Adjusted associations of metabolites with AFC in original units.
DOI: 10.6084/m9.figshare.12895272
title: Additional file 3 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 3. Supplementary Table 2 AST results.
DOI: 10.6084/m9.figshare.12895264.v1
title: Additional file 2 of Association of the functional ovarian reserve with serum metabolomic profiling by nuclear magnetic resonance spectroscopy: a cross-sectional study of ~ 400 women

description: Additional file 2: Table S4. Adjusted associations of metabolites with AMH in original units. Table S5. Adjusted associations of metabolites with AFC in original units.
DOI: 10.6084/m9.figshare.12895269
title: Additional file 2 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 2. Supplementary Table 1 Patient drug identifiers.
DOI: 10.6084/m9.figshare.12895269.v1
title: Additional file 2 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 2. Supplementary Table 1 Patient drug identifiers.
DOI: 10.6084/m9.figshare.12895272.v1
title: Additional file 3 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 3. Supplementary Table 2 AST results.
DOI: 10.6084/m9.figshare.12895275
title: Additional file 4 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 4. Supplementary Table 3 SNP distances.
DOI: 10.6084/m9.figshare.12895275.v1
title: Additional file 4 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 4. Supplementary Table 3 SNP distances.
DOI: 10.6084/m9.figshare.12895281.v1
title: Additional file 6 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 6. Supplementary Table 5 NCBI references.
DOI: 10.6084/m9.figshare.12895284
title: Additional file 7 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 7. Supplementary Table 6 Double disk test.
DOI: 10.6084/m9.figshare.12895281
title: Additional file 6 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 6. Supplementary Table 5 NCBI references.
DOI: 10.6084/m9.figshare.12895284.v1
title: Additional file 7 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 7. Supplementary Table 6 Double disk test.
DOI: 10.6084/m9.figshare.12895278.v1
title: Additional file 5 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 5. Supplementary Table 4 ARG data.
DOI: 10.6084/m9.figshare.12895278
title: Additional file 5 of Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial

description: Additional file 5. Supplementary Table 4 ARG data.
DOI: 10.6084/m9.figshare.5742423
title: Additional file 1: of CNN-BLPred: a Convolutional neural network based predictor for Î˛-Lactamases (BL) and their classes

description: Independent Dataset 1 (ZIP 5801Â kb)
DOI: 10.6084/m9.figshare.5742423.v1
title: Additional file 1: of CNN-BLPred: a Convolutional neural network based predictor for Î˛-Lactamases (BL) and their classes

description: Independent Dataset 1 (ZIP 5801Â kb)
DOI: 10.6084/m9.figshare.5742420
title: Additional file 1: of Causes of higher symptomatic airway load in patients with chronic rhinosinusitis

description: Data containing patient disease classification, allergy status, asthma status, LM CT score, VAS score, SNOT score and biofilm status. (XLS 28 kb)
DOI: 10.6084/m9.figshare.5742420.v1
title: Additional file 1: of Causes of higher symptomatic airway load in patients with chronic rhinosinusitis

description: Data containing patient disease classification, allergy status, asthma status, LM CT score, VAS score, SNOT score and biofilm status. (XLS 28 kb)
DOI: 10.6084/m9.figshare.5742417
title: Additional file 1: of Utilizing random Forest QSAR models with optimized parameters for target identification and its application to target-fishing server

description: MySQL codes for bioactivity extraction from ChEMBL database. Variable “molregno” from table “compound_structures” is identification code for ligands while variable “tid” from table “target_dictionary” is identification code for targets. (TXT 1 kb)
DOI: 10.6084/m9.figshare.5742417.v1
title: Additional file 1: of Utilizing random Forest QSAR models with optimized parameters for target identification and its application to target-fishing server

description: MySQL codes for bioactivity extraction from ChEMBL database. Variable “molregno” from table “compound_structures” is identification code for ligands while variable “tid” from table “target_dictionary” is identification code for targets. (TXT 1 kb)
DOI: 10.6084/m9.figshare.5742390
title: Additional file 3: Text S1. of Platform-independent gene expression signature differentiates sessile serrated adenomas/polyps and hyperplastic polyps of the colon

description: R code with instructions on how to classify new qRT-PCR samples as HP or SSA/P. (R 1 kb)
DOI: 10.6084/m9.figshare.5742390.v1
title: Additional file 3: Text S1. of Platform-independent gene expression signature differentiates sessile serrated adenomas/polyps and hyperplastic polyps of the colon

description: R code with instructions on how to classify new qRT-PCR samples as HP or SSA/P. (R 1 kb)
DOI: 10.6084/m9.figshare.5742351
title: Additional file 3: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: The log2(FC) values and experimental fold changes for DEGs verified with qRT-PCR as well as the primer sequences constructed and used in qRT-PCR. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.5742351.v1
title: Additional file 3: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: The log2(FC) values and experimental fold changes for DEGs verified with qRT-PCR as well as the primer sequences constructed and used in qRT-PCR. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.5742336
title: Additional file 1: of Platform-independent gene expression signature differentiates sessile serrated adenomas/polyps and hyperplastic polyps of the colon

description: Table S1. The list of qRT-PCR primers for signature genes. Table S2. Normalized expression levels (median and MAD) obtained by qRT-PCR from 45 independent FFPE samples and the classification result obtained using the 13 genes molecular signature with different sample normalizations. Table S3. Raw expression levels of 13 genes in the molecular signature obtained by qRT-PCR from 45 independent FFPE samples. Table S4. The list of 139 genes that were DE between SSA/Ps and both HP and CR samples. Table S5. The list of 172 genes, exclusively DE between SSA/P and HP samples. Table S6. The list of 1014 genes, exclusively DE between SSA/P and CR samples. Table S7. The list of 105 genes, DE in three comparisons. Table S8. Number of common genes between three different platforms. Table S9. Class probabilities assigned using empirical approach, normal approximation, shrunken centroid classifier (independent of the summary metric), and the Cantelli’s inequality lower bound when the 18-gene signature from Table 2 is used. Table S10. Class probabilities assigned using empirical approach, normal approximation, shrunken centroid classifier (independent of the summary metric), and the Cantelli’s inequality lower bound when the 16-gene signature from Table 2 is used. Table S11. Class probabilities assigned using empirical approach, normal approximation, shrunken centroid classifier (independent of the summary metric), and the Cantelli’s inequality lower bound when the 13-gene signature from Table 2 is used. (XLSX 275 kb)
DOI: 10.6084/m9.figshare.5742336.v1
title: Additional file 1: of Platform-independent gene expression signature differentiates sessile serrated adenomas/polyps and hyperplastic polyps of the colon

description: Table S1. The list of qRT-PCR primers for signature genes. Table S2. Normalized expression levels (median and MAD) obtained by qRT-PCR from 45 independent FFPE samples and the classification result obtained using the 13 genes molecular signature with different sample normalizations. Table S3. Raw expression levels of 13 genes in the molecular signature obtained by qRT-PCR from 45 independent FFPE samples. Table S4. The list of 139 genes that were DE between SSA/Ps and both HP and CR samples. Table S5. The list of 172 genes, exclusively DE between SSA/P and HP samples. Table S6. The list of 1014 genes, exclusively DE between SSA/P and CR samples. Table S7. The list of 105 genes, DE in three comparisons. Table S8. Number of common genes between three different platforms. Table S9. Class probabilities assigned using empirical approach, normal approximation, shrunken centroid classifier (independent of the summary metric), and the Cantelli’s inequality lower bound when the 18-gene signature from Table 2 is used. Table S10. Class probabilities assigned using empirical approach, normal approximation, shrunken centroid classifier (independent of the summary metric), and the Cantelli’s inequality lower bound when the 16-gene signature from Table 2 is used. Table S11. Class probabilities assigned using empirical approach, normal approximation, shrunken centroid classifier (independent of the summary metric), and the Cantelli’s inequality lower bound when the 13-gene signature from Table 2 is used. (XLSX 275 kb)
DOI: 10.6084/m9.figshare.5742327
title: Additional file 2: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: Comparison of root transcriptomes of resistant and susceptible S. phureja genotypes collected 72Â h after inoculation with either nematode or water. (XLSX 236Â kb)
DOI: 10.6084/m9.figshare.5742327.v1
title: Additional file 2: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: Comparison of root transcriptomes of resistant and susceptible S. phureja genotypes collected 72Â h after inoculation with either nematode or water. (XLSX 236Â kb)
DOI: 10.6084/m9.figshare.5742309
title: Additional file 1: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: Positions of potential resistance genes (Jupe et al. [46]) in the reference S. tuberosum genome. (XLSX 44Â kb)
DOI: 10.6084/m9.figshare.5742309.v1
title: Additional file 1: of Differential expression of NBS-LRR-encoding genes in the root transcriptomes of two Solanum phureja genotypes with contrasting resistance to Globodera rostochiensis

description: Positions of potential resistance genes (Jupe et al. [46]) in the reference S. tuberosum genome. (XLSX 44Â kb)
DOI: 10.6084/m9.figshare.5742288
title: Additional file 2: of External validation of type 2 diabetes computer simulation models: definitions, approaches, implications and room for improvementâ a protocol for a systematic review

description: The data extraction table. The file is an example of a data extraction form that will be used for collecting data in this review. (XLSX 140Â kb)
DOI: 10.6084/m9.figshare.5742288.v1
title: Additional file 2: of External validation of type 2 diabetes computer simulation models: definitions, approaches, implications and room for improvementâ a protocol for a systematic review

description: The data extraction table. The file is an example of a data extraction form that will be used for collecting data in this review. (XLSX 140Â kb)
DOI: 10.6084/m9.figshare.5742276
title: Additional file 4: of Development of models for predicting Torsade de Pointes cardiac arrhythmias using perceptron neural networks

description: Ensemble predictions for all 200 ANN 3D-SDAR models. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.5742276.v1
title: Additional file 4: of Development of models for predicting Torsade de Pointes cardiac arrhythmias using perceptron neural networks

description: Ensemble predictions for all 200 ANN 3D-SDAR models. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.5742255
title: Additional file 4: Table S3. of Profiling the onset of somatic embryogenesis in Arabidopsis

description: Expression data concerning all the genes discussed in the main text. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.5742255.v1
title: Additional file 4: Table S3. of Profiling the onset of somatic embryogenesis in Arabidopsis

description: Expression data concerning all the genes discussed in the main text. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.5742234
title: Additional file 3: Table S2. of Profiling the onset of somatic embryogenesis in Arabidopsis

description: Differentially expressed genes between embryogenic cells and callus cells. (XLSX 942 kb)
DOI: 10.6084/m9.figshare.5742234.v1
title: Additional file 3: Table S2. of Profiling the onset of somatic embryogenesis in Arabidopsis

description: Differentially expressed genes between embryogenic cells and callus cells. (XLSX 942 kb)
DOI: 10.6084/m9.figshare.5742225
title: Additional file 1: of MultiDCoX: Multi-factor analysis of differential co-expression

description: Results of Analysis of Breast Cancer Data. Contains all differentially co-expressed genesets with respective differential co-expression model fit (F-test p-value, coefficient value), gene counts, and permutation results over three factors (ER, p53 and Grade) in breast cancer data. Remarks: Grade + indicates higher grade tumor i.e. 2 and 3, while Grade– indicates lower grade tumour i.e. 1. (XLS 804 kb)
DOI: 10.6084/m9.figshare.5742225.v1
title: Additional file 1: of MultiDCoX: Multi-factor analysis of differential co-expression

description: Results of Analysis of Breast Cancer Data. Contains all differentially co-expressed genesets with respective differential co-expression model fit (F-test p-value, coefficient value), gene counts, and permutation results over three factors (ER, p53 and Grade) in breast cancer data. Remarks: Grade + indicates higher grade tumor i.e. 2 and 3, while Grade– indicates lower grade tumour i.e. 1. (XLS 804 kb)
DOI: 10.6084/m9.figshare.5742210
title: Additional file 1: of Development of models for predicting Torsade de Pointes cardiac arrhythmias using perceptron neural networks

description: Drugs used in this study and their TdP risk. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.5742210.v1
title: Additional file 1: of Development of models for predicting Torsade de Pointes cardiac arrhythmias using perceptron neural networks

description: Drugs used in this study and their TdP risk. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.5742207
title: Additional file 2: Table S1. of Profiling the onset of somatic embryogenesis in Arabidopsis

description: Genes uniquely expressed in embryogenic cells (sheet 1) and callus cells (sheet2). Genes uniquely expressed in proliferating callus. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.5742207.v1
title: Additional file 2: Table S1. of Profiling the onset of somatic embryogenesis in Arabidopsis

description: Genes uniquely expressed in embryogenic cells (sheet 1) and callus cells (sheet2). Genes uniquely expressed in proliferating callus. (XLSX 29 kb)
DOI: 10.4225/03/5a45bd0c223b3
title: Figure 4 and S5_Figure raw data

description: Raw data for figure 4 and S5_Figure of manuscript Genetic compensation triggered by actin mutation prevents the muscle damage caused by loss of actin protein.
DOI: 10.4225/03/5a45bc1160080
title: S6_Figure Raw Data

description: Raw data for S6_Figure of manuscript Genetic compensation triggered by actin mutation prevents the muscle damage caused by loss of actin protein.
DOI: 10.6084/m9.figshare.5742174
title: The combined impacts of experimental defaunation and logging on seedling traits and diversity

description: Seedling mortality in 2016 of of seedlings tagged in experimental exclusion plots in 2013 in logged and unlogged forest in Malaysian Borneo. Community weighted mean plant traits for seedling inside exclusion plots also given.
DOI: 10.4225/03/5a45a70c4217e
title: Figure 1 Raw Data

description: Raw data for Figure 1 in manuscript Genetic compensation triggered by actin mutation prevents the muscle damage caused by loss of actin protein.<br>
DOI: 10.6084/m9.figshare.5742150
title: CO-ARBitrator negative training set

description: List of GIs of protein sequences with significant similarity to COI but believed with very high confidence not to be COI. Used as positive examples for training the CO-ARBitrator algorithm.
DOI: 10.6084/m9.figshare.5742150.v1
title: CO-ARBitrator negative training set

description: List of GIs of protein sequences with significant similarity to COI but believed with very high confidence not to be COI. Used as positive examples for training the CO-ARBitrator algorithm.
DOI: 10.6084/m9.figshare.5742147
title: CO-ARBitrator positive training set

description: List of GIs of protein sequences believed with very high confidence to be COI. Used as positive examples for training the CO-ARBitrator algorithm.
DOI: 10.6084/m9.figshare.5742147.v1
title: CO-ARBitrator positive training set

description: List of GIs of protein sequences believed with very high confidence to be COI. Used as positive examples for training the CO-ARBitrator algorithm.
DOI: 10.6084/m9.figshare.5742144
title: CO-ARBitrator representative COI protein sequences

description: Fasta file of representative COI sequences. Used as blastp queries against GenBank in phase 1 of the CO-ARBitrator algorithm.
DOI: 10.6084/m9.figshare.5742144.v1
title: CO-ARBitrator representative COI protein sequences

description: Fasta file of representative COI sequences. Used as blastp queries against GenBank in phase 1 of the CO-ARBitrator algorithm.
DOI: 10.6084/m9.figshare.5742132
title: Raw data: The mechanism of short-term monocular deprivation is not simple: separate effects on parallel and cross-oriented dichoptic masking

description: Data for paper submitted to Scientific Reports:<i>The mechanism of short-term monocular deprivation is not simple: separate effects on parallel and cross-oriented dichoptic masking</i>
DOI: 10.6084/m9.figshare.5741979
title: Nanoscopic X-ray Fluorescence Imaging and Quantification of Intracellular Key-Elements in Cryofrozen Friedreich’s Ataxia Fibroblasts

description: 2D nano-XRF spectra of cryofrozen human fibroblasts measured at the ESRF ID22NI 'nano-imaging' beamline--------------------------------------------------------------------------------------<br><br>*.edf files containing 2D nano-XRF spectra of human fibroblasts from control and Friedreich's ataxia (FRDA) patients.<br>Data required to obtain Fig 2-3:---------------------------------* ctrl_pn_HR.tgz: high resolution (HR) 2D nano-XRF on control patient fibroblast* frda_djs_HR.tgz: high resolution (HR) 2D nano-XRF on FRDA patient fibroblast (including all six detector channels used to generate Suppl. Fig 1-3)<br><br>Data required to obtain Fig 4:---------------------------------ctrl_lr_repl.tgz: coarse 2D XRF scans on control fibroblasts (5 different cells, scan 1-5)frda_sl_repl.tgz: coarse 2D XRF scans on FRDA patient fibroblasts (5 different cells, scan2-6)<br>Data required to obtain Suppl. Fig 4-5----------------------------------------------bliver.tgz: 2D XRF scans on NIST SRM 1577C 'bovine liver' using 250 and 25nm step size<br><br><br>
DOI: 10.6084/m9.figshare.5741979.v1
title: Nanoscopic X-ray Fluorescence Imaging and Quantification of Intracellular Key-Elements in Cryofrozen Friedreich’s Ataxia Fibroblasts

description: 2D nano-XRF spectra of cryofrozen human fibroblasts measured at the ESRF ID22NI 'nano-imaging' beamline--------------------------------------------------------------------------------------<br><br>*.edf files containing 2D nano-XRF spectra of human fibroblasts from control and Friedreich's ataxia (FRDA) patients.<br>Data required to obtain Fig 2-3:---------------------------------* ctrl_pn_HR.tgz: high resolution (HR) 2D nano-XRF on control patient fibroblast* frda_djs_HR.tgz: high resolution (HR) 2D nano-XRF on FRDA patient fibroblast (including all six detector channels used to generate Suppl. Fig 1-3)<br><br>Data required to obtain Fig 4:---------------------------------ctrl_lr_repl.tgz: coarse 2D XRF scans on control fibroblasts (5 different cells, scan 1-5)frda_sl_repl.tgz: coarse 2D XRF scans on FRDA patient fibroblasts (5 different cells, scan2-6)<br>Data required to obtain Suppl. Fig 4-5----------------------------------------------bliver.tgz: 2D XRF scans on NIST SRM 1577C 'bovine liver' using 250 and 25nm step size<br><br><br>
DOI: 10.6084/m9.figshare.5740266
title: Effects of Precipitation Changes on Switchgrass Photosynthesis, Growth, and Biomass

description: Supplimental Data for Figures (Fig. 1 to Fig. 5) Dafeng Hui, Chih-Li Yu, Qi Deng, E. Kudjo Dzantor, Suping Zhou, Sam Dennis, Roger Sauve, Terrance L. Johnson, Philip A Fay, Weijun Shen, Yiqi Luo. Effects of Precipitation Changes on Switchgrass Photosynthesis, Growth, and Biomass: a Mesocosm Experiment. Data sheets for Fig 1: Monthly mean soil temperature and soil moisture in each precipitation treatment from February to October in 2014 and 2015 Data sheets for Fig 2: Monthly mean photosynthesis and transpiration in each precipitation treatment from February to October in 2014 and 2015 Data sheets for Fig 3: Multiple comparisons of leaf photosynthesis, stomatal conductance, transpiration, and water use efficiency among different precipitation treatments Data sheets for Fig 4: Multiple comparisons of number of tillers, maximum height, and biomass of leaf, stem and total plant, and leaf:stem ratio among different precipitation treatments Data sheets for Fig 5: Relationships among leaf photosynthesis, transpiration, water use efficiency (WUEi), number of tillers, plant height, biomass, leaf temperature, soil temperature, and soil moisture under all precipitation treatments. SAS_code: SAS code for ANOVA analyses