cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9277724
title: Additional file 7: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Description of the primers used for the PCR and ddPCR assays. pair_id: the identifier attributed to a particular primer pair; chromosome: the chromosome on which the intended target of the primer pair is located; start_pos: the starting position of the intended target of the primer pair on the chromosome reference sequence; end_pos: the end position of the intended target of the primer pair on the chromosome reference sequence; amplicon_length: the predicted amplicon length of the intended target; forward_primer_sequence: the sequence of the forward primer; reverse_primer_sequence: the sequence of the reverse primer. (CSV 4 kb)
DOI: 10.6084/m9.figshare.9277718
title: Additional file 5: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Description of the CNVs selected for validation by PCR/ddPCR and summary of the results. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; kbp: the estimated size of the CNV in kbp; n_bins: the number of 1-kb bins supporting this CNV; mean_log2: the mean log2 ratio of the bins across this CNV; primer_pair1: the identifier of the first primer pair designed for that CNV; primer_pair2: the identifier of the second primer pair designed for that CNV (N/A means that there is no second primer pair for that CNV); validation_status: a description of the conclusion reached for that particular CNV based on the PCR and ddPCR results. (CSV 2 kb)
DOI: 10.6084/m9.figshare.9277724.v1
title: Additional file 7: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Description of the primers used for the PCR and ddPCR assays. pair_id: the identifier attributed to a particular primer pair; chromosome: the chromosome on which the intended target of the primer pair is located; start_pos: the starting position of the intended target of the primer pair on the chromosome reference sequence; end_pos: the end position of the intended target of the primer pair on the chromosome reference sequence; amplicon_length: the predicted amplicon length of the intended target; forward_primer_sequence: the sequence of the forward primer; reverse_primer_sequence: the sequence of the reverse primer. (CSV 4 kb)
DOI: 10.6084/m9.figshare.9277721
title: Additional file 6: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Primer3 settings file used for the primer design of the PCR and ddPCR primers. (TXT 955 bytes)
DOI: 10.6084/m9.figshare.9277718.v1
title: Additional file 5: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Description of the CNVs selected for validation by PCR/ddPCR and summary of the results. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; kbp: the estimated size of the CNV in kbp; n_bins: the number of 1-kb bins supporting this CNV; mean_log2: the mean log2 ratio of the bins across this CNV; primer_pair1: the identifier of the first primer pair designed for that CNV; primer_pair2: the identifier of the second primer pair designed for that CNV (N/A means that there is no second primer pair for that CNV); validation_status: a description of the conclusion reached for that particular CNV based on the PCR and ddPCR results. (CSV 2 kb)
DOI: 10.6084/m9.figshare.9277721.v1
title: Additional file 6: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Primer3 settings file used for the primer design of the PCR and ddPCR primers. (TXT 955 bytes)
DOI: 10.6084/m9.figshare.9277709
title: Additional file 4: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Copy number of templates amplified by 37 primer pairs in mutant and control lines as assessed by a ddPCR assay. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; primer_pair: the identifier of the primer pair that was used for that assay; mutant_conc: the concentration (in number of DNA templates per μl) measured in the mutant for that assay; mutant_ref: the concentration (in number of DNA templates per μl) measured using reference primer pair BY in that mutant; mutant_n: the copy number of the templates amplified by primer_pair in the mutant as determined by dividing mutant_conc by mutant_ref; control_conc: the concentration (in number of DNA templates per μl) measured in the control for that assay; control_ref: the concentration (in number of DNA templates per μl) measured using reference primer pair BY in the control; control_n: the copy number of the templates amplified by primer_pair in the control as determined by dividing control_conc by control_ref; ratio: the ratio of the copy number of the mutant to the copy number of the control for the templates amplified by primer_pair. (CSV 4 kb)
DOI: 10.6084/m9.figshare.9277700
title: Additional file 3: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Copy number variants found in the 79 mutants sequenced by GBS using the two combined libraries. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; kbp: the estimated size of the CNV in kbp; n_bins: the number of 1-kb bins supporting this CNV; mean_log2: the mean log2 ratio of the bins across this CNV; validated_by_CGH: whether or not this CNV was validated by the aCGH dataset; validated_by_PCR: whether or not this CNV was validated by the PCR/ddPCR assays. (CSV 11 kb)
DOI: 10.6084/m9.figshare.9277709.v1
title: Additional file 4: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Copy number of templates amplified by 37 primer pairs in mutant and control lines as assessed by a ddPCR assay. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; primer_pair: the identifier of the primer pair that was used for that assay; mutant_conc: the concentration (in number of DNA templates per μl) measured in the mutant for that assay; mutant_ref: the concentration (in number of DNA templates per μl) measured using reference primer pair BY in that mutant; mutant_n: the copy number of the templates amplified by primer_pair in the mutant as determined by dividing mutant_conc by mutant_ref; control_conc: the concentration (in number of DNA templates per μl) measured in the control for that assay; control_ref: the concentration (in number of DNA templates per μl) measured using reference primer pair BY in the control; control_n: the copy number of the templates amplified by primer_pair in the control as determined by dividing control_conc by control_ref; ratio: the ratio of the copy number of the mutant to the copy number of the control for the templates amplified by primer_pair. (CSV 4 kb)
DOI: 10.6084/m9.figshare.9277700.v1
title: Additional file 3: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Copy number variants found in the 79 mutants sequenced by GBS using the two combined libraries. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; kbp: the estimated size of the CNV in kbp; n_bins: the number of 1-kb bins supporting this CNV; mean_log2: the mean log2 ratio of the bins across this CNV; validated_by_CGH: whether or not this CNV was validated by the aCGH dataset; validated_by_PCR: whether or not this CNV was validated by the PCR/ddPCR assays. (CSV 11 kb)
DOI: 10.6084/m9.figshare.9277691
title: Additional file 2: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Copy number variants found in the 19 individuals subjected to aCGH. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; kbp: the estimated size of the CNV in kbp; n_probes: the number of aCGH probes supporting this CNV; mean_log2: the mean log2 ratio of the probes across this CNV; found_by_GBS: whether or not this CNV was detected by the GBS approach. (CSV 6 kb)
DOI: 10.6084/m9.figshare.9277691.v1
title: Additional file 2: of Screening populations for copy number variation using genotyping-by-sequencing: a proof of concept using soybean fast neutron mutants

description: Copy number variants found in the 19 individuals subjected to aCGH. ID: the identifier of the mutant; CNV_type: the type of CNV (homdel = homozygous deletion, hetdel = hemizygous deletion, dup = duplication); chr: the chromosome on which the CNV is located; start: the starting position of the CNV; end: the end position of the CNV; kbp: the estimated size of the CNV in kbp; n_probes: the number of aCGH probes supporting this CNV; mean_log2: the mean log2 ratio of the probes across this CNV; found_by_GBS: whether or not this CNV was detected by the GBS approach. (CSV 6 kb)
DOI: 10.6084/m9.figshare.9277637
title: MOESM2 of Rapid prediction of NMR spectral properties with quantified uncertainty

description: Additional file 2: Table S2. List of the chemical compounds and putative targets of RSM following screening.
DOI: 10.6084/m9.figshare.9277637.v1
title: MOESM2 of Rapid prediction of NMR spectral properties with quantified uncertainty

description: Additional file 2: Table S2. List of the chemical compounds and putative targets of RSM following screening.
DOI: 10.6084/m9.figshare.9277610
title: Additional file 6: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S6. Wnt experiment. De-multiplexed NGS read counts of the differentiation (Wnt/Î˛-catenin) experiment. (a) Replicate 1, (b) replicate 2, (c) replicate 3 (XLSX 851 kb)
DOI: 10.6084/m9.figshare.9277604
title: Additional file 5: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S5. Growth media experiment. De-multiplexed NGS read counts of the media comparison experiment. (a) Replicate 1 and (b) replicate 2 (XLSX 662 kb)
DOI: 10.6084/m9.figshare.9277610.v1
title: Additional file 6: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S6. Wnt experiment. De-multiplexed NGS read counts of the differentiation (Wnt/Î˛-catenin) experiment. (a) Replicate 1, (b) replicate 2, (c) replicate 3 (XLSX 851 kb)
DOI: 10.6084/m9.figshare.9277595
title: Additional file 4: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S4. RNA dilution experiment. De-multiplexed NGS read counts of the RNA/cDNA dilution experiments starting from (a) RNA or (b) cDNA templates (XLSX 32 kb)
DOI: 10.6084/m9.figshare.9277604.v1
title: Additional file 5: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S5. Growth media experiment. De-multiplexed NGS read counts of the media comparison experiment. (a) Replicate 1 and (b) replicate 2 (XLSX 662 kb)
DOI: 10.6084/m9.figshare.9277595.v1
title: Additional file 4: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S4. RNA dilution experiment. De-multiplexed NGS read counts of the RNA/cDNA dilution experiments starting from (a) RNA or (b) cDNA templates (XLSX 32 kb)
DOI: 10.6084/m9.figshare.9277592
title: Additional file 3: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S3. Genotyping experiment. De-multiplexed NGS read counts of the BRCA genotyping NGS experiments. (a) Genotyping using barcodes without a protection group, (b) frequencies of NNN protection groups, (c) genotyping using barcodes with 5â ˛CCA protection group (XLSX 74 kb)
DOI: 10.6084/m9.figshare.9277583
title: Additional file 2: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S2. Primers and loci. Primers used for BART-Seq experiments and the list of reported mutations for 96 patient samples used in the study. (a) Genotyping primers, (b) reported genotypes of the patient samples, (c) primers used with NNN barcodes, (d) pluripotency primers, (e) differentiation primers (XLSX 45 kb)
DOI: 10.6084/m9.figshare.9277592.v1
title: Additional file 3: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S3. Genotyping experiment. De-multiplexed NGS read counts of the BRCA genotyping NGS experiments. (a) Genotyping using barcodes without a protection group, (b) frequencies of NNN protection groups, (c) genotyping using barcodes with 5â ˛CCA protection group (XLSX 74 kb)
DOI: 10.6084/m9.figshare.9277580
title: Additional file 1: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S1. Barcodes. Forward and reverse barcode sets used for BART-Seq experiments (a) barcodes v1, (b) NNN barcodes, (c) barcodes v2 (XLSX 20 kb)
DOI: 10.6084/m9.figshare.9277583.v1
title: Additional file 2: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S2. Primers and loci. Primers used for BART-Seq experiments and the list of reported mutations for 96 patient samples used in the study. (a) Genotyping primers, (b) reported genotypes of the patient samples, (c) primers used with NNN barcodes, (d) pluripotency primers, (e) differentiation primers (XLSX 45 kb)
DOI: 10.6084/m9.figshare.9277580.v1
title: Additional file 1: of BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

description: Table S1. Barcodes. Forward and reverse barcode sets used for BART-Seq experiments (a) barcodes v1, (b) NNN barcodes, (c) barcodes v2 (XLSX 20 kb)
DOI: 10.6084/m9.figshare.9277562
title: MOESM1 of CoverageTool: A semi-automated graphic software: applications for plant phenotyping

description: Additional file 1. CoverageTool â Coverage.exeâ .
DOI: 10.6084/m9.figshare.9277562.v1
title: MOESM1 of CoverageTool: A semi-automated graphic software: applications for plant phenotyping

description: Additional file 1. CoverageTool â Coverage.exeâ .
DOI: 10.6084/m9.figshare.9277298
title: Additional file 6: of Rpv3â 1 mediated resistance to grapevine downy mildew is associated with specific host transcriptional responses and the accumulation of stilbenes

description: Sequence of the oligonucleotides used for qPCR analysis. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9277298.v1
title: Additional file 6: of Rpv3â 1 mediated resistance to grapevine downy mildew is associated with specific host transcriptional responses and the accumulation of stilbenes

description: Sequence of the oligonucleotides used for qPCR analysis. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9277289
title: Additional file 5: of Rpv3–1 mediated resistance to grapevine downy mildew is associated with specific host transcriptional responses and the accumulation of stilbenes

description: List of 2042 differentially expressed genes identified using interaction term analysis and displayed in Venn diagram (Fig. 7). xInteraction term analyses to identify DEG characteristic for a successful defence by comparing the pairwise contrasts of Rpv3–1 samples with susceptible samples. (adjusted P ≤ 0.1). FC, fold change. (XLSX 305 kb)
DOI: 10.6084/m9.figshare.9277289.v1
title: Additional file 5: of Rpv3–1 mediated resistance to grapevine downy mildew is associated with specific host transcriptional responses and the accumulation of stilbenes

description: List of 2042 differentially expressed genes identified using interaction term analysis and displayed in Venn diagram (Fig. 7). xInteraction term analyses to identify DEG characteristic for a successful defence by comparing the pairwise contrasts of Rpv3–1 samples with susceptible samples. (adjusted P ≤ 0.1). FC, fold change. (XLSX 305 kb)
DOI: 10.6084/m9.figshare.9277274
title: Additional file 3: of Rpv3–1 mediated resistance to grapevine downy mildew is associated with specific host transcriptional responses and the accumulation of stilbenes

description: Pairwise comparison analysis using LIMMA of Vitis vinifera gene expression in response to Plasmopara viticola infection. Blue font indicates significant up-regulation, while red font highlights significant down-regulation (adjusted P ≤ 0.1). Gray font denotes genes with fold changes that were not significant (adjusted P &gt; 0.1). FC, fold change. (XLSX 460 kb)
DOI: 10.6084/m9.figshare.9277274.v1
title: Additional file 3: of Rpv3–1 mediated resistance to grapevine downy mildew is associated with specific host transcriptional responses and the accumulation of stilbenes

description: Pairwise comparison analysis using LIMMA of Vitis vinifera gene expression in response to Plasmopara viticola infection. Blue font indicates significant up-regulation, while red font highlights significant down-regulation (adjusted P ≤ 0.1). Gray font denotes genes with fold changes that were not significant (adjusted P &gt; 0.1). FC, fold change. (XLSX 460 kb)
DOI: 10.6084/m9.figshare.9277250
title: MOESM4 of Whole-genome mapping of quantitative trait loci and accuracy of genomic predictions for resistance to columnaris disease in two rainbow trout breeding populations

description: Additional file 4: Table S1. Annotated protein coding genes in RefSeq (NCBI genome annotation of predicted protein coding genes; Accession GCA_002163495.1) found within the QTL region with the largest effect on resistance to CD in the NCCCWA population (Chr. Omy 17; 59,030,557Â bpâ 59,975,343Â bp).
DOI: 10.6084/m9.figshare.9277250.v1
title: MOESM4 of Whole-genome mapping of quantitative trait loci and accuracy of genomic predictions for resistance to columnaris disease in two rainbow trout breeding populations

description: Additional file 4: Table S1. Annotated protein coding genes in RefSeq (NCBI genome annotation of predicted protein coding genes; Accession GCA_002163495.1) found within the QTL region with the largest effect on resistance to CD in the NCCCWA population (Chr. Omy 17; 59,030,557Â bpâ 59,975,343Â bp).
DOI: 10.6084/m9.figshare.9277196
title: MOESM4 of Do small protected habitat patches within boreal production forests provide value for biodiversity conservation? A systematic review protocol

description: Additional file 4. The performance of the search string. Document of testing search string in search engines.
DOI: 10.6084/m9.figshare.9277196.v1
title: MOESM4 of Do small protected habitat patches within boreal production forests provide value for biodiversity conservation? A systematic review protocol

description: Additional file 4. The performance of the search string. Document of testing search string in search engines.
DOI: 10.6084/m9.figshare.9277187
title: MOESM2 of Do small protected habitat patches within boreal production forests provide value for biodiversity conservation? A systematic review protocol

description: Additional file 2. ROSES form.
DOI: 10.6084/m9.figshare.9277187.v1
title: MOESM2 of Do small protected habitat patches within boreal production forests provide value for biodiversity conservation? A systematic review protocol

description: Additional file 2. ROSES form.
DOI: 10.6084/m9.figshare.9276728
title: Dynamics of the botanical knowledge of the Laklãnõ-Xokleng indigenous people in Southern Brazil

description: ABSTRACT We analyzed the botanical knowledge of the Laklãnõ-Xokleng people in the Ibirama Laklãnõ Indigenous Territory. They are the last remnant of this ethnicity living in a unitary socio-political organization. The objective was to investigate the dynamics, distribution and transmission of botanical information. We interviewed 112 people in two villages about known and used plants. Data were collected through structured socioeconomic questionnaires, free lists and walk-in-the-woods tours. Data were analyzed using descriptive statistics and metrics of social network analysis. Of the 314 plants mentioned in the interviews, 77 % were currently used, 15 % were used in the past, and 8 % were known but never used. Men cited more plants than women. We found no correlation between the distribution of knowledge and age, but there was a relationship between families that valued Laklãnõ-Xokleng culture and individual knowledge. Transmission of knowledge about plants used medicinally and for handicrafts occurs mainly between generations and during childhood. Transmission networks emphasize the central position of elders as knowledge transmitters for their families. Different network topologies reflect particular dynamics in the medicinal and handicraft use of plants. External and internal pressures have caused changes in the transmission of the botanical knowledge of the Laklãnõ-Xokleng.
DOI: 10.6084/m9.figshare.9276731
title: DIGITAL COMPETENCES IN EDUCATION: A DISCUSSION OF THE CONCEPT

description: ABSTRACT: This article provides a systematic review of the concept of Digital Competences (DC) in Education. Three databases were used: Capes Thesis and Dissertation Database, Capes Journal Database, and Google Scholar using the keywords Digital Competences, Digital Competence (in Portuguese) and Digital Competence (in English). Publications from 1997 to 2017 were used, excluding repetitive texts. Of the 487 total publications found, 40 were analyzed based their relation to the area and general interest. The importance of understanding the concept of DC was verified. In fact, technological complexity has given rise to different needs. Thus, it was necessary to trace the history of related terms, such as Computational Literacy, Informational Literacy, Media Literacy and Digital Literacy. The majority of the authors treated digital competences as a set of elements, comprised of knowledge, skills and attitudes (KSAs), necessary for the subject to be able to use the technologies.