cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11293787
title: MOESM2 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 2. Annotation results of the poinsettia bract transcriptome against the TAIR10 database.
DOI: 10.6084/m9.figshare.11293793
title: MOESM3 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 3. Distribution of percent length coverage for the top matching database entries from the poinsettia bract transcripts.
DOI: 10.6084/m9.figshare.11293793.v1
title: MOESM3 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 3. Distribution of percent length coverage for the top matching database entries from the poinsettia bract transcripts.
DOI: 10.6084/m9.figshare.11293787.v1
title: MOESM2 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 2. Annotation results of the poinsettia bract transcriptome against the TAIR10 database.
DOI: 10.6084/m9.figshare.11293775
title: MOESM12 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 12. Primer sequences for each of the genes analyzed by RT-qPCR in poinsettia bracts.
DOI: 10.6084/m9.figshare.11293772
title: MOESM11 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 11. List of enriched GO terms for the comparisons between Christmas Feelings (red) and Christmas Feelings Pearl (white) poinsettia varieties for the different bract developmental stages.
DOI: 10.6084/m9.figshare.11293775.v1
title: MOESM12 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 12. Primer sequences for each of the genes analyzed by RT-qPCR in poinsettia bracts.
DOI: 10.6084/m9.figshare.11293766
title: MOESM10 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 10. Differentially expressed transcripts for the comparisons between Christmas Feelings (red) and Christmas Feelings Pearl (white) poinsettia varieties for the different bract developmental stages.
DOI: 10.6084/m9.figshare.11293772.v1
title: MOESM11 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 11. List of enriched GO terms for the comparisons between Christmas Feelings (red) and Christmas Feelings Pearl (white) poinsettia varieties for the different bract developmental stages.
DOI: 10.6084/m9.figshare.11293766.v1
title: MOESM10 of Hybrid de novo transcriptome assembly of poinsettia (Euphorbia pulcherrima Willd. Ex Klotsch) bracts

description: Additional file 10. Differentially expressed transcripts for the comparisons between Christmas Feelings (red) and Christmas Feelings Pearl (white) poinsettia varieties for the different bract developmental stages.
DOI: 10.6084/m9.figshare.11293568
title: MOESM8 of Genome sequence of the model rice variety KitaakeX

description: Additional file 8. Genomic variations between KitaakeX and Kitaake. SNPs, InDels variations, and XA21 position are listed in this file.
DOI: 10.6084/m9.figshare.11293568.v1
title: MOESM8 of Genome sequence of the model rice variety KitaakeX

description: Additional file 8. Genomic variations between KitaakeX and Kitaake. SNPs, InDels variations, and XA21 position are listed in this file.
DOI: 10.6084/m9.figshare.11293562
title: MOESM6 of Genome sequence of the model rice variety KitaakeX

description: Additional file 6. SNPs between KitaakeX and Zhenshan97.
DOI: 10.6084/m9.figshare.11293553
title: MOESM5 of Genome sequence of the model rice variety KitaakeX

description: Additional file 5. Comparative genomic analysis between KitaakeX and Zhenshan97. SNPs, InDels, PAVs, Inversions, and genes affected by SNPs, IndDels, PAVs and Inversions are listed in this file.
DOI: 10.6084/m9.figshare.11293562.v1
title: MOESM6 of Genome sequence of the model rice variety KitaakeX

description: Additional file 6. SNPs between KitaakeX and Zhenshan97.
DOI: 10.6084/m9.figshare.11293547
title: MOESM4 of Genome sequence of the model rice variety KitaakeX

description: Additional file 4. Comparative genomic analysis between KitaakeX and Nipponbare. SNPs, InDels, PAVs, Inversions, and genes affected by SNPs, IndDels, PAVs and Inversions are listed in this file.
DOI: 10.6084/m9.figshare.11293553.v1
title: MOESM5 of Genome sequence of the model rice variety KitaakeX

description: Additional file 5. Comparative genomic analysis between KitaakeX and Zhenshan97. SNPs, InDels, PAVs, Inversions, and genes affected by SNPs, IndDels, PAVs and Inversions are listed in this file.
DOI: 10.6084/m9.figshare.11293541
title: MOESM3 of Genome sequence of the model rice variety KitaakeX

description: Additional file 3: Table S13. Genes used in annotation quality control. We selected 291 genes from three pathways associated with stress resistance, flowering time and response to light to evaluate the quality of annotation. See main text for additional details.
DOI: 10.6084/m9.figshare.11293547.v1
title: MOESM4 of Genome sequence of the model rice variety KitaakeX

description: Additional file 4. Comparative genomic analysis between KitaakeX and Nipponbare. SNPs, InDels, PAVs, Inversions, and genes affected by SNPs, IndDels, PAVs and Inversions are listed in this file.
DOI: 10.6084/m9.figshare.11293541.v1
title: MOESM3 of Genome sequence of the model rice variety KitaakeX

description: Additional file 3: Table S13. Genes used in annotation quality control. We selected 291 genes from three pathways associated with stress resistance, flowering time and response to light to evaluate the quality of annotation. See main text for additional details.
DOI: 10.6084/m9.figshare.11293520
title: MOESM11 of Genome sequence of the model rice variety KitaakeX

description: Additional file 11. Functional annotation of KitaakeX genome.
DOI: 10.6084/m9.figshare.11293511
title: MOESM10 of Genome sequence of the model rice variety KitaakeX

description: Additional file 10. Repeat annotation of KitaakeX genome.
DOI: 10.6084/m9.figshare.11293520.v1
title: MOESM11 of Genome sequence of the model rice variety KitaakeX

description: Additional file 11. Functional annotation of KitaakeX genome.
DOI: 10.6084/m9.figshare.11293511.v1
title: MOESM10 of Genome sequence of the model rice variety KitaakeX

description: Additional file 10. Repeat annotation of KitaakeX genome.
DOI: 10.6084/m9.figshare.11293466
title: MOESM1 of The relationship between the different low birth weight strata of newborns with infant mortality and the influence of the main health determinants in the extreme south of Brazil

description: Additional file 1: Database originated from the link between the two health information systems used (Live Birth Information System and Mortality Information System). It contains all the variables used in the sixteen year period evaluated. (SAV 83644 kb)
DOI: 10.6084/m9.figshare.11293466.v1
title: MOESM1 of The relationship between the different low birth weight strata of newborns with infant mortality and the influence of the main health determinants in the extreme south of Brazil

description: Additional file 1: Database originated from the link between the two health information systems used (Live Birth Information System and Mortality Information System). It contains all the variables used in the sixteen year period evaluated. (SAV 83644 kb)
DOI: 10.6084/m9.figshare.11293439
title: MOESM3 of Stowaway miniature inverted repeat transposable elements are important agents driving recent genomic diversity in wild and cultivated carrot

description: Additional file 3: Supplementary Table: contains a list of gene-associated parallel insertion sites (PIS) and their functional annotations.
DOI: 10.6084/m9.figshare.11293439.v1
title: MOESM3 of Stowaway miniature inverted repeat transposable elements are important agents driving recent genomic diversity in wild and cultivated carrot

description: Additional file 3: Supplementary Table: contains a list of gene-associated parallel insertion sites (PIS) and their functional annotations.
DOI: 10.6084/m9.figshare.11293421
title: MOESM9 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 9. Transcript per million (TPM) counts of the control treatment (8_30) of sporophytes from each geographical origin corresponding to genes encoding chaperones, antioxidant proteins and salinity stress expected genes. In bold TPM values of genes considered constitutively expressed in the control, in red genes with TPM values considered highly different between samples from the two locations.
DOI: 10.6084/m9.figshare.11293424
title: MOESM1 of Stowaway miniature inverted repeat transposable elements are important agents driving recent genomic diversity in wild and cultivated carrot

description: Additional file 1: DcSto annotation: contains gff3 annotations of 18.5 K DcSto insertions identified in 31 carrot genomes.
DOI: 10.6084/m9.figshare.11293415
title: MOESM8 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 8 Results of the two-way ANOVA and graphic representation for effects of temperature, salinity and their interaction on the pigments measured after 24 h of temperature and salinity exposure. Statistically significant values are indicated by asterisks (P
DOI: 10.6084/m9.figshare.11293421.v1
title: MOESM9 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 9. Transcript per million (TPM) counts of the control treatment (8_30) of sporophytes from each geographical origin corresponding to genes encoding chaperones, antioxidant proteins and salinity stress expected genes. In bold TPM values of genes considered constitutively expressed in the control, in red genes with TPM values considered highly different between samples from the two locations.
DOI: 10.6084/m9.figshare.11293424.v1
title: MOESM1 of Stowaway miniature inverted repeat transposable elements are important agents driving recent genomic diversity in wild and cultivated carrot

description: Additional file 1: DcSto annotation: contains gff3 annotations of 18.5 K DcSto insertions identified in 31 carrot genomes.
DOI: 10.6084/m9.figshare.11293412
title: MOESM1 of Analysing detection of chronic diseases with prolonged sub-clinical periods: modelling and application to hypertension in the U.S.

description: Additional file 1 Script for the statistical software r. The text-file contains the commands and analysis for the simulation.
DOI: 10.6084/m9.figshare.11293415.v1
title: MOESM8 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 8 Results of the two-way ANOVA and graphic representation for effects of temperature, salinity and their interaction on the pigments measured after 24 h of temperature and salinity exposure. Statistically significant values are indicated by asterisks (P
DOI: 10.6084/m9.figshare.11293412.v1
title: MOESM1 of Analysing detection of chronic diseases with prolonged sub-clinical periods: modelling and application to hypertension in the U.S.

description: Additional file 1 Script for the statistical software r. The text-file contains the commands and analysis for the simulation.
DOI: 10.6084/m9.figshare.11293394
title: MOESM5 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 5. Number of significantly enriched GO terms among DEGs. Comparison of exposure treatments against control (8_30) of each location.
DOI: 10.6084/m9.figshare.11293388
title: MOESM4 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 4. List of DEGs found in the exposure treatments against control (8_30) of each location; P ≤ 0.001 and log2-fold change &gt; 2.
DOI: 10.6084/m9.figshare.11293382
title: MOESM3 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 3. Number of DEGs for each pairwise comparison per location; P ≤ 0.001 and log2-fold change &gt; 2; Percentage of DEGs shared between Roscoff and Spitsbergen samples per treatment.
DOI: 10.6084/m9.figshare.11293388.v1
title: MOESM4 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 4. List of DEGs found in the exposure treatments against control (8_30) of each location; P ≤ 0.001 and log2-fold change &gt; 2.
DOI: 10.6084/m9.figshare.11293394.v1
title: MOESM5 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 5. Number of significantly enriched GO terms among DEGs. Comparison of exposure treatments against control (8_30) of each location.
DOI: 10.6084/m9.figshare.11293382.v1
title: MOESM3 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 3. Number of DEGs for each pairwise comparison per location; P ≤ 0.001 and log2-fold change &gt; 2; Percentage of DEGs shared between Roscoff and Spitsbergen samples per treatment.
DOI: 10.6084/m9.figshare.11293376
title: MOESM2 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 2 List of DEGs found in the comparison of control (8_30) between Spitsbergen and Roscoff samples; P ≤ 0.001 and log2-fold change &gt; 2.
DOI: 10.6084/m9.figshare.11293367
title: MOESM1 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 1. Summary of transcriptome statistics and of transcript annotations in the public databases.
DOI: 10.6084/m9.figshare.11293376.v1
title: MOESM2 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 2 List of DEGs found in the comparison of control (8_30) between Spitsbergen and Roscoff samples; P ≤ 0.001 and log2-fold change &gt; 2.
DOI: 10.6084/m9.figshare.11293367.v1
title: MOESM1 of Is geographical variation driving the transcriptomic responses to multiple stressors in the kelp Saccharina latissima?

description: Additional file 1. Summary of transcriptome statistics and of transcript annotations in the public databases.
DOI: 10.6084/m9.figshare.11293340
title: MOESM8 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 8: Table S8. GO analysis for genes in M55.
DOI: 10.6084/m9.figshare.11293340.v1
title: MOESM8 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 8: Table S8. GO analysis for genes in M55.
DOI: 10.6084/m9.figshare.11293322
title: MOESM6 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 6: Table S7. List of genes within each WGCNA module (kME &gt; 0.7).
DOI: 10.6084/m9.figshare.11293322.v1
title: MOESM6 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 6: Table S7. List of genes within each WGCNA module (kME &gt; 0.7).
DOI: 10.6084/m9.figshare.11293307
title: MOESM5 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 5: Table S6. Differentially upregulated biologic pathways associated with decreased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293310
title: MOESM4 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 4: Table S4. GO analysis for DEGs between WT ST and CT. Table S5. GO analysis for DEGs between KO ST and CT. Table S6. GO analysis for DEGs between KO ST and WT ST.
DOI: 10.6084/m9.figshare.11293301
title: MOESM4 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 4: Table S5. Differentially upregulated biologic pathways associated with increased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293304
title: MOESM3 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 3: Table S1. List of DEG between WT ST and CT. Table S2. List of DEG between KO ST and CT. Table S3. List of DEG between KO ST and WT ST.
DOI: 10.6084/m9.figshare.11293307.v1
title: MOESM5 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 5: Table S6. Differentially upregulated biologic pathways associated with decreased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293310.v1
title: MOESM4 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 4: Table S4. GO analysis for DEGs between WT ST and CT. Table S5. GO analysis for DEGs between KO ST and CT. Table S6. GO analysis for DEGs between KO ST and WT ST.
DOI: 10.6084/m9.figshare.11293301.v1
title: MOESM4 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 4: Table S5. Differentially upregulated biologic pathways associated with increased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293304.v1
title: MOESM3 of Identification of stress resilience module by weighted gene co-expression network analysis in Fkbp5-deficient mice

description: Additional file 3: Table S1. List of DEG between WT ST and CT. Table S2. List of DEG between KO ST and CT. Table S3. List of DEG between KO ST and WT ST.
DOI: 10.6084/m9.figshare.11293286
title: Additional file 8 of Identification and ranking of recurrent neo-epitopes in cancer

description: Additional file 8 Confirmation Status with Gold Standard Data Set. The protein changes described in van Buuren et al. ([38]) and Fritsch et al. ([37]) have been mapped to the ENSEMBL protein set and neo-epitopes have been computed using our standard pipeline. 26 of these epitopes are exactly recovered by the pipeline, for one of them the pipeline predicts a strong binder for a shorter peptide, and 5 of them are predicted to be weakly binding. Column 7 to 10 are copied from ([37]) and ([38]).
DOI: 10.6084/m9.figshare.11293292
title: MOESM3 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 3: Table S4. Differentially upregulated genes associated with decreased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293283
title: MOESM2 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 2: Table S3. Differentially upregulated genes associated with increased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293292.v1
title: MOESM3 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 3: Table S4. Differentially upregulated genes associated with decreased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293283.v1
title: MOESM2 of Molecular subtyping improves prognostication of Stage 2 colorectal cancer

description: Additional file 2: Table S3. Differentially upregulated genes associated with increased survival in Stage 2 colorectal tumours
DOI: 10.6084/m9.figshare.11293286.v2
title: Additional file 8 of Identification and ranking of recurrent neo-epitopes in cancer

description: Additional file 8 Confirmation Status with Gold Standard Data Set. The protein changes described in van Buuren et al. ([38]) and Fritsch et al. ([37]) have been mapped to the ENSEMBL protein set and neo-epitopes have been computed using our standard pipeline. 26 of these epitopes are exactly recovered by the pipeline, for one of them the pipeline predicts a strong binder for a shorter peptide, and 5 of them are predicted to be weakly binding. Column 7 to 10 are copied from ([37]) and ([38]).
DOI: 10.6084/m9.figshare.11293286.v1
title: MOESM8 of Identification and ranking of recurrent neo-epitopes in cancer

description: Additional file 8 Confirmation Status with Gold Standard Data Set. The protein changes described in van Buuren et al. ([38]) and Fritsch et al. ([37]) have been mapped to the ENSEMBL protein set and neo-epitopes have been computed using our standard pipeline. 26 of these epitopes are exactly recovered by the pipeline, for one of them the pipeline predicts a strong binder for a shorter peptide, and 5 of them are predicted to be weakly binding. Column 7 to 10 are copied from ([37]) and ([38]).
DOI: 10.6084/m9.figshare.11293268
title: Additional file 5 of Identification and ranking of recurrent neo-epitopes in cancer

description: Additional file 5 Oncogenes and tumor suppressors. Number of variants occurring in genes classified as tumor suppressor genes and oncongenes by ([28]), for each study. The numbers are given for the full set of variants, among recurrent variants only and among variants leading to neo-epitope candidates. As each protein change is considered only once, the total number of variants is always smaller or equal to the sum over all studies, as protein changes appearing in multiple studies are counted only once in the total.
DOI: 10.6084/m9.figshare.11293271
title: Additional file 6 of Identification and ranking of recurrent neo-epitopes in cancer

description: Additional file 6 Expected number of target patients for each neo-epitope candidates, for the 18 cancer entities with associated epidemiological data. The expected number of patients is the product between the number of new cases, the observed variant frequency and the HLA type frequency in the US population. The total expected number of patients for each candidate is the sum over the expected number of candidates by study.
DOI: 10.6084/m9.figshare.11293268.v2
title: Additional file 5 of Identification and ranking of recurrent neo-epitopes in cancer

description: Additional file 5 Oncogenes and tumor suppressors. Number of variants occurring in genes classified as tumor suppressor genes and oncongenes by ([28]), for each study. The numbers are given for the full set of variants, among recurrent variants only and among variants leading to neo-epitope candidates. As each protein change is considered only once, the total number of variants is always smaller or equal to the sum over all studies, as protein changes appearing in multiple studies are counted only once in the total.
DOI: 10.6084/m9.figshare.11293259
title: Additional file 2 of Identification and ranking of recurrent neo-epitopes in cancer

description: Additional file 2 Neo-epitope candidates from recurrent variants. Recurrent variants leading to binding (strong and weak binders) neo-epitopes for one of the 11 HLA types considered. Peptide length redundancy has been removed from the variant list, and each variant is listed only once, even if it is recurrent in multiple study cohorts.