cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.10033598
title: The History and Chemistry of Platinum-toned Salted Paper Prints

description: A wealth of period literature from as early as 1856 through the 1920s promoted the toning of salted paper prints with platinum to achieve certain aesthetic effects and improve silver image permanence. A variety of toning bath compositions were proposed to achieve a range of image tones. Additionally, other platinum and matte silver photographic processes, such as kallitypes, silver-platinum prints (e.g., “Satista”), and silver-intensified platinum prints, were popular during the salted paper print revival and may have similar characteristics. However, few examples of prints containing both silver and platinum have been identified in museum collections. To investigate their chemical natures and range of appearances, the authors fabricated prints according to historic recipes. These simulacra were analyzed by XRF spectroscopy and color measurement and artificially aged to provide data relating to metal content, appearance, and longevity. High-resolution electron microscopy of the salted paper print samples revealed the chemical influence of the toning method on the metallic nanostructures that comprise the image. Ultimately, the analytical results are tied to visual observations to elucidate toning methods used by early photographers, contribute to process identification, and draw conclusions about the conservation of these materials.
DOI: 10.6084/m9.figshare.10033598.v1
title: The History and Chemistry of Platinum-toned Salted Paper Prints

description: A wealth of period literature from as early as 1856 through the 1920s promoted the toning of salted paper prints with platinum to achieve certain aesthetic effects and improve silver image permanence. A variety of toning bath compositions were proposed to achieve a range of image tones. Additionally, other platinum and matte silver photographic processes, such as kallitypes, silver-platinum prints (e.g., “Satista”), and silver-intensified platinum prints, were popular during the salted paper print revival and may have similar characteristics. However, few examples of prints containing both silver and platinum have been identified in museum collections. To investigate their chemical natures and range of appearances, the authors fabricated prints according to historic recipes. These simulacra were analyzed by XRF spectroscopy and color measurement and artificially aged to provide data relating to metal content, appearance, and longevity. High-resolution electron microscopy of the salted paper print samples revealed the chemical influence of the toning method on the metallic nanostructures that comprise the image. Ultimately, the analytical results are tied to visual observations to elucidate toning methods used by early photographers, contribute to process identification, and draw conclusions about the conservation of these materials.
DOI: 10.5281/zenodo.4768806
title: Opt2Q Example mixed_data_calibration_results

description: A model of apoptosis (aEARM) was calibrated to a dataset containing synthetic ordinal measurements and nominal (survival vs apoptosis) outcomes using PyDREAM. The posterior sample for the model parameters and log-posterior traces are included as .npy files. The .txt files show the Gelman Rubin metric for each of the model parameters. The data was generated using https://github.com/LoLab-VU/Opt2Q
DOI: 10.5281/zenodo.4768805
title: Opt2Q Example mixed_data_calibration_results

description: A model of apoptosis (aEARM) was calibrated to a dataset containing synthetic ordinal measurements and nominal (survival vs apoptosis) outcomes using PyDREAM. The posterior sample for the model parameters and log-posterior traces are included as .npy files. The .txt files show the Gelman Rubin metric for each of the model parameters. The data was generated using https://github.com/LoLab-VU/Opt2Q
DOI: 10.5281/zenodo.4768807
title: Testing Images For SimCenter AI Models

description: Testing Images
DOI: 10.5281/zenodo.4768814
title: Opt2Q Example nominal_data_calibration_results

description: A model of apoptosis (aEARM) was calibrated to a dataset containing synthetic nominal (survival vs apoptosis) outcomes using PyDREAM. The posterior sample for the model parameters and log-posterior traces are included as .npy files. The .txt files show the Gelman Rubin metric for each of the model parameters. The data was generated using https://github.com/LoLab-VU/Opt2Q
DOI: 10.5281/zenodo.4768813
title: Opt2Q Example nominal_data_calibration_results

description: A model of apoptosis (aEARM) was calibrated to a dataset containing synthetic nominal (survival vs apoptosis) outcomes using PyDREAM. The posterior sample for the model parameters and log-posterior traces are included as .npy files. The .txt files show the Gelman Rubin metric for each of the model parameters. The data was generated using https://github.com/LoLab-VU/Opt2Q
DOI: 10.6084/m9.figshare.14183612.v2
title: Additional file 10 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file10: Table S2. (A) List of RELAFUS1-HA peaks in TSS±10kb in H1203-mEPN cells (649 peaks; 520 genes). (B) List of H3K27ac peaks in H41-mEPN cells. (C) List of H3K27ac peaks in H1203-mEPN cells. (D and E) List of super-enhancers (SEs) identified in H3K27ac peaks in mEPN cells (D, H41 and E, H1203 cells). (F) List of overlapping of super-enhancers (SEs) in H41 and H1203-mEPN cells. (G) List of overlapping genes between the single-cell transcriptomic signature genes of ST-ependymomas and the RELAFUS1 target genes in 293T-RELAFUS1 or mouse ependymoma (H1203) cells. (XLSX 5761 KB)
DOI: 10.6084/m9.figshare.14183612
title: Additional file 10 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file10: Table S2. (A) List of RELAFUS1-HA peaks in TSS±10kb in H1203-mEPN cells (649 peaks; 520 genes). (B) List of H3K27ac peaks in H41-mEPN cells. (C) List of H3K27ac peaks in H1203-mEPN cells. (D and E) List of super-enhancers (SEs) identified in H3K27ac peaks in mEPN cells (D, H41 and E, H1203 cells). (F) List of overlapping of super-enhancers (SEs) in H41 and H1203-mEPN cells. (G) List of overlapping genes between the single-cell transcriptomic signature genes of ST-ependymomas and the RELAFUS1 target genes in 293T-RELAFUS1 or mouse ependymoma (H1203) cells. (XLSX 5761 KB)
DOI: 10.6084/m9.figshare.14183612.v1
title: Additional file 10 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file10.
DOI: 10.6084/m9.figshare.14183615
title: Additional file 11 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 11: Table S3. (A) List of top 10 RELAFUS1 motifs in RELAFUS1 peaks in 293T-RELAFUS1 cells. (B) List of top 5 Rela motifs in Rela peaks in MEFs (C) List of DNA sequences identified as the MEME-2 sequence in 293T-RELAFUS1 target genes. (D) List of top 10 RELAFUS1 motifs in RELAFUS1 peaks in H1203-EPN cells. (E) List of DNA sequences identified as the most enriched motif in H1203-RELAFUS1 target genes. (XLSX 53 KB)
DOI: 10.6084/m9.figshare.14183618
title: Additional file 12 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 12: Table S4. (A) Dysregulated pathways driven by RELAFUS1target genes in TSS±10kb in 293T-RELAFUS1 cells. (B) Dysregulated pathways driven by RELAFUS1 target genes in TSS ±10kb in H1203-mEPN cells. (C) Dysregulated pathways driven by RELAFUS1-S486E target genes in TSS ±10kb in 293T-RELAFUS1-S486E cells. (D) Up-regulated genes in ST-EPN-RELA relative to ST-EPN-YAP1 subgroup (DEGs: RELAup vs YAP1, logFC&gt;1, FDR &lt; 0.05) (E) Down-regulated genes in ST-EPN-RELA relative to ST-EPN-YAP1 subgroup (DEGs: RELA vs YAP1up, logFC &lt; -1, FDR &lt; 0.05) (F) Up-regulated pathways in ST-EPN-RELA subgroup (G) Up-regulated pathways in ST-EPN-YAP1 subgroup. (XLSX 546 KB)
DOI: 10.6084/m9.figshare.14183618.v1
title: Additional file 12 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 12: Table S4. (A) Dysregulated pathways driven by RELAFUS1target genes in TSS±10kb in 293T-RELAFUS1 cells. (B) Dysregulated pathways driven by RELAFUS1 target genes in TSS ±10kb in H1203-mEPN cells. (C) Dysregulated pathways driven by RELAFUS1-S486E target genes in TSS ±10kb in 293T-RELAFUS1-S486E cells. (D) Up-regulated genes in ST-EPN-RELA relative to ST-EPN-YAP1 subgroup (DEGs: RELAup vs YAP1, logFC&gt;1, FDR &lt; 0.05) (E) Down-regulated genes in ST-EPN-RELA relative to ST-EPN-YAP1 subgroup (DEGs: RELA vs YAP1up, logFC &lt; -1, FDR &lt; 0.05) (F) Up-regulated pathways in ST-EPN-RELA subgroup (G) Up-regulated pathways in ST-EPN-YAP1 subgroup. (XLSX 546 KB)
DOI: 10.6084/m9.figshare.14183624
title: Additional file 14 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 14: Table S6. (A–C) List of vector constructs (A) and primers (B) and antibodies (C). (XLSX 16 KB)
DOI: 10.6084/m9.figshare.14183621
title: Additional file 13 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 13: Table S5. (A) List of 179 drugs used in anti-cancer drug screening. (B) Result of the drug screening in H41- and H1203-mEPN cells. The mean values of cell viability (% of control) in two mEPN cells are shown in the table. (XLSX 27 KB)
DOI: 10.6084/m9.figshare.14183621.v1
title: Additional file 13 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 13: Table S5. (A) List of 179 drugs used in anti-cancer drug screening. (B) Result of the drug screening in H41- and H1203-mEPN cells. The mean values of cell viability (% of control) in two mEPN cells are shown in the table. (XLSX 27 KB)
DOI: 10.6084/m9.figshare.14183624.v1
title: Additional file 14 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 14: Table S6. (A–C) List of vector constructs (A) and primers (B) and antibodies (C). (XLSX 16 KB)
DOI: 10.6084/m9.figshare.14183615.v1
title: Additional file 11 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file 11: Table S3. (A) List of top 10 RELAFUS1 motifs in RELAFUS1 peaks in 293T-RELAFUS1 cells. (B) List of top 5 Rela motifs in Rela peaks in MEFs (C) List of DNA sequences identified as the MEME-2 sequence in 293T-RELAFUS1 target genes. (D) List of top 10 RELAFUS1 motifs in RELAFUS1 peaks in H1203-EPN cells. (E) List of DNA sequences identified as the most enriched motif in H1203-RELAFUS1 target genes. (XLSX 53 KB)
DOI: 10.6084/m9.figshare.14183657.v1
title: Additional file 9 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file9.: Table S1. (A) Summary of ChIP-seq analysis in 293T/tv-a and mEPN cells. (B) List of RELAFUS1-HA peaks in TSS±10kb in 293T/tv-a cells (779 peaks; 619 unique genes). (C) List of RELAFUS1-S486E-HA peaks in TSS±10kb in 293T/tv-a cells (566 peaks; 446 unique genes). (D) List of RELAFUS1 or RELAFUS1-S486E specific target genes bound in TSS ±10kb. Red and blue letters denote RELAFUS1 and RELAFUS1-S486E target genes, respectively. (E) List of RELAFUS1, RELAFUS1-S486E and Rela target genes bound in TSS±10kb. (XLSX 308 KB)
DOI: 10.6084/m9.figshare.14183657
title: Additional file 9 of C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation

description: Additional file9.: Table S1. (A) Summary of ChIP-seq analysis in 293T/tv-a and mEPN cells. (B) List of RELAFUS1-HA peaks in TSS±10kb in 293T/tv-a cells (779 peaks; 619 unique genes). (C) List of RELAFUS1-S486E-HA peaks in TSS±10kb in 293T/tv-a cells (566 peaks; 446 unique genes). (D) List of RELAFUS1 or RELAFUS1-S486E specific target genes bound in TSS ±10kb. Red and blue letters denote RELAFUS1 and RELAFUS1-S486E target genes, respectively. (E) List of RELAFUS1, RELAFUS1-S486E and Rela target genes bound in TSS±10kb. (XLSX 308 KB)
DOI: 10.6084/m9.figshare.14544766.v1
title: Additional file 2 of Training and expertise in undertaking assisted vaginal delivery (AVD): a mixed methods systematic review of practitioners views and experiences

description: Additional file 2. QA.
DOI: 10.6084/m9.figshare.14544769
title: Additional file 3 of Training and expertise in undertaking assisted vaginal delivery (AVD): a mixed methods systematic review of practitioners views and experiences

description: Additional file 3. Data extraction.
DOI: 10.6084/m9.figshare.14544766
title: Additional file 2 of Training and expertise in undertaking assisted vaginal delivery (AVD): a mixed methods systematic review of practitioners views and experiences

description: Additional file 2. QA.
DOI: 10.6084/m9.figshare.14544769.v1
title: Additional file 3 of Training and expertise in undertaking assisted vaginal delivery (AVD): a mixed methods systematic review of practitioners views and experiences

description: Additional file 3. Data extraction.
DOI: 10.6084/m9.figshare.14544772
title: Additional file 4 of Training and expertise in undertaking assisted vaginal delivery (AVD): a mixed methods systematic review of practitioners views and experiences

description: Additional file 4. Excluded studies.
DOI: 10.6084/m9.figshare.14544772.v1
title: Additional file 4 of Training and expertise in undertaking assisted vaginal delivery (AVD): a mixed methods systematic review of practitioners views and experiences

description: Additional file 4. Excluded studies.
DOI: 10.6084/m9.figshare.14608447.v1
title: Additional file 5 of Microbiomes of clownfish and their symbiotic host anemone converge before their first physical contact

description: Additional file 4: Table S3. DESeq2 test results of pairwise comparisons between Interaction and control groups over all time points. Results show the main statistics of each ASV (filtered to keep only those with a p-value &lt; 0.0001 fdr). Additional taxonomic annotation is provided (closest blastn match against the NCBI 16S database, as well as the LCA annotation).
DOI: 10.6084/m9.figshare.14608447
title: Additional file 5 of Microbiomes of clownfish and their symbiotic host anemone converge before their first physical contact

description: Additional file 4: Table S3. DESeq2 test results of pairwise comparisons between Interaction and control groups over all time points. Results show the main statistics of each ASV (filtered to keep only those with a p-value &lt; 0.0001 fdr). Additional taxonomic annotation is provided (closest blastn match against the NCBI 16S database, as well as the LCA annotation).
DOI: 10.6084/m9.figshare.14608469.v1
title: Additional file 2 of treeclimbR pinpoints the data-dependent resolution of hierarchical hypotheses

description: Additional file 2 countSimQC report of parametric synthetic microbial datasets
DOI: 10.6084/m9.figshare.14608469
title: Additional file 2 of treeclimbR pinpoints the data-dependent resolution of hierarchical hypotheses

description: Additional file 2 countSimQC report of parametric synthetic microbial datasets
DOI: 10.6084/m9.figshare.14608477
title: Additional file 2 of Alcohol use and its determinants among adults living with HIV/AIDS in Ethiopia: a systematic review and meta-analysis

description: Additional file 2. Sample data extraction format.
DOI: 10.6084/m9.figshare.14608477.v1
title: Additional file 2 of Alcohol use and its determinants among adults living with HIV/AIDS in Ethiopia: a systematic review and meta-analysis

description: Additional file 2. Sample data extraction format.
DOI: 10.6084/m9.figshare.14608498
title: Additional file 1 of Hanging by a thread: unusual nocturnal resting behaviour in a jumping spider

description: Additional file 1: Supplementary methods S1 and S2. S1: Additional methods and supplementary figures S1 to S5; S2: R-Script of data analysis.
DOI: 10.6084/m9.figshare.14608498.v1
title: Additional file 1 of Hanging by a thread: unusual nocturnal resting behaviour in a jumping spider

description: Additional file 1: Supplementary methods S1 and S2. S1: Additional methods and supplementary figures S1 to S5; S2: R-Script of data analysis.
DOI: 10.6084/m9.figshare.14608501.v1
title: Additional file 2 of Hanging by a thread: unusual nocturnal resting behaviour in a jumping spider

description: Additional file 2: Dataset S1. Data generated and analysed during the study.
DOI: 10.6084/m9.figshare.14608501
title: Additional file 2 of Hanging by a thread: unusual nocturnal resting behaviour in a jumping spider

description: Additional file 2: Dataset S1. Data generated and analysed during the study.
DOI: 10.21227/wqv0-h648
title: SSCZO PDR

description: Packet delivery ratio data with transmitter and receiver GPS locations for the publication entitled "Wireless-Sensor Network Topology Optimization in Complex Terrain: A Bayesian Approach."
DOI: 10.6084/m9.figshare.14608612
title: Additional file 1 of Single-cell genomics unveils a canonical origin of the diverse mitochondrial genomes of euglenozoans

description: Additional file 1: Table S1. General statistics of assembled SAGs. Table S2. Proportion of mtDNA in SAGs. Table S3. List of proteins searched in EU17/18 reassembly. +, presence; +?, uncertain presence; -, absence.
DOI: 10.6084/m9.figshare.14608612.v1
title: Additional file 1 of Single-cell genomics unveils a canonical origin of the diverse mitochondrial genomes of euglenozoans

description: Additional file 1: Table S1. General statistics of assembled SAGs. Table S2. Proportion of mtDNA in SAGs. Table S3. List of proteins searched in EU17/18 reassembly. +, presence; +?, uncertain presence; -, absence.
DOI: 10.6084/m9.figshare.14608622
title: Additional file 1 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 1. Bantu Samples Demographic Info. Description: The list of Bantu samples with demographic information.
DOI: 10.6084/m9.figshare.14608622.v1
title: Additional file 1 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 1. Bantu Samples Demographic Info. Description: The list of Bantu samples with demographic information.
DOI: 10.6084/m9.figshare.14608625
title: Additional file 2 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 2. The list of CNVs. Description: The list of CNVs detected in our study.
DOI: 10.6084/m9.figshare.14608625.v1
title: Additional file 2 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 2. The list of CNVs. Description: The list of CNVs detected in our study.
DOI: 10.6084/m9.figshare.14608628
title: Additional file 3 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 3. The list of CNVRs. Description: The list of CNVRs identified in our study.
DOI: 10.6084/m9.figshare.14608631
title: Additional file 4 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 4. The list of CNV blocks. Description: The list of Bantu CNV blocks identified in our study.
DOI: 10.6084/m9.figshare.14608619
title: Additional file 10 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 10. CNVs associated with DECIPHER syndromes overlapping large CNVs observed in our cohort. Description: The list of DECIPHER CNV syndromes overlapped with DECIPHER CNV syndromes.
DOI: 10.6084/m9.figshare.14608631.v1
title: Additional file 4 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 4. The list of CNV blocks. Description: The list of Bantu CNV blocks identified in our study.
DOI: 10.6084/m9.figshare.14608634
title: Additional file 5 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 5. The list of DDG2P genes used in our analysis. Description: The list of DDG2P genes used in our analysis to detect genes overlapping with Bantu CNV blocks.
DOI: 10.6084/m9.figshare.14608634.v1
title: Additional file 5 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 5. The list of DDG2P genes used in our analysis. Description: The list of DDG2P genes used in our analysis to detect genes overlapping with Bantu CNV blocks.
DOI: 10.6084/m9.figshare.14608640
title: Additional file 7 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 7. The list of large (&gt;300kb) CNVs observed in unrelated individuals in our cohort. Description: The list of large CNVs identified in our study.
DOI: 10.6084/m9.figshare.14608628.v1
title: Additional file 3 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 3. The list of CNVRs. Description: The list of CNVRs identified in our study.
DOI: 10.6084/m9.figshare.14608640.v1
title: Additional file 7 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 7. The list of large (&gt;300kb) CNVs observed in unrelated individuals in our cohort. Description: The list of large CNVs identified in our study.
DOI: 10.6084/m9.figshare.14608643
title: Additional file 8 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 8. The list of CNVs associated with DECIPHER Syndromes used in our analysis: Description: The list of DECIPHER CNV syndromes used in our study.
DOI: 10.6084/m9.figshare.14608646
title: Additional file 9 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 9. Novel CNVs observed in our cohort. Description: The list of novel CNVs detected in our study.
DOI: 10.6084/m9.figshare.14608637
title: Additional file 6 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 6. CNV blocks overlapped with DDG2P genes. Description: The list of Bantu CNV blocks overlapped with DDG2P genes.
DOI: 10.6084/m9.figshare.14608643.v1
title: Additional file 8 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 8. The list of CNVs associated with DECIPHER Syndromes used in our analysis: Description: The list of DECIPHER CNV syndromes used in our study.
DOI: 10.6084/m9.figshare.14608646.v1
title: Additional file 9 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 9. Novel CNVs observed in our cohort. Description: The list of novel CNVs detected in our study.
DOI: 10.6084/m9.figshare.14608619.v1
title: Additional file 10 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 10. CNVs associated with DECIPHER syndromes overlapping large CNVs observed in our cohort. Description: The list of DECIPHER CNV syndromes overlapped with DECIPHER CNV syndromes.
DOI: 10.6084/m9.figshare.14608637.v1
title: Additional file 6 of Genome-wide copy number variations in a large cohort of bantu African children

description: Additional file 6. CNV blocks overlapped with DDG2P genes. Description: The list of Bantu CNV blocks overlapped with DDG2P genes.