cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12878059.v1
title: Additional file 1 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 1: HepG2 TCDD time course and cycloheximide cotreatment cDNA microarray data. A table containing the expression ratios relative to the time matched vehicle control for the time course study. Ratios for the cycloheximide studies are relative to the treatment condition. P1(t)-values represent posterior probabilities of activity on a per gene and time-point basis or treatment condition using the model-based t-value. (XLS 7 MB)
DOI: 10.6084/m9.figshare.12878035
title: Additional file 12 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 12: Putative rat secondary response genes and the number of DREs in their promoters. A table listing the putative secondary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 39 KB)
DOI: 10.6084/m9.figshare.12878047
title: Additional file 16 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 16: Common differentially regulated orthologs elicited by TCDD in human HepG2 and mouse Hepa1c1c7 cells identified from the whole-genome Agilent microarrays at 24 hrs. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 40 KB)
DOI: 10.6084/m9.figshare.12878098
title: Additional file 3 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 3: H4IIE TCDD time course and cycloheximide cotreatment cDNA microarray data. A table containing the expression ratios relative to the time matched vehicle control for the time course study. Ratios for the cycloheximide studies are relative to the treatment condition. P1(t)-values represent posterior probabilities of activity on a per gene and time-point basis or treatment condition using the model-based t-value. (XLS 6 MB)
DOI: 10.6084/m9.figshare.12878038.v1
title: Additional file 13 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 13: Whole-genome Agilent microarray data from HepG2 cells treated with TCDD for 24 hrs. A table containing the expression ratio relative to the time matched vehicle control. P1(t)-values represent posterior probabilities of activity on a per gene basis using the model-based t-value. (XLS 7 MB)
DOI: 10.6084/m9.figshare.12878101.v1
title: Additional file 4 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 4: Common differentially regulated orthologs elicited by TCDD in human HepG2 and mouse Hepa1c1c7 cells identified from the cDNA microarray time course studies. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 50 KB)
DOI: 10.6084/m9.figshare.12878110.v1
title: Additional file 7 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 7: Putative human primary response genes and the number of DREs in their promoters. A table listing the putative primary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 62 KB)
DOI: 10.6084/m9.figshare.12878116.v1
title: Additional file 9 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 9: Putative rat primary response genes and the number of DREs in their promoters. A table listing the putative primary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 32 KB)
DOI: 10.6084/m9.figshare.12878119.v25
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878119.v26
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878044
title: Additional file 15 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 15: Whole-genome Agilent microarray data from H4IIE cells treated with TCDD for 24 hrs. A table containing the expression ratio relative to the time matched vehicle control. P1(t)-values represent posterior probabilities of activity on a per gene basis using the model-based t-value. (XLS 6 MB)
DOI: 10.6084/m9.figshare.12878053
title: Additional file 18 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 18: Common differentially regulated orthologs elicited by TCDD in human HepG2 and rat H4IIE cells identified from the whole-genome Agilent microarrays at 24 hrs. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 29 KB)
DOI: 10.6084/m9.figshare.12878119.v29
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878119.v24
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878035.v1
title: Additional file 12 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 12: Putative rat secondary response genes and the number of DREs in their promoters. A table listing the putative secondary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 39 KB)
DOI: 10.6084/m9.figshare.12878050
title: Additional file 17 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 17: Common differentially regulated orthologs elicited by TCDD in rat H4IIE and mouse Hepa1c1c7 cells identified from the whole-genome Agilent microarrays at 24 hrs. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 30 KB)
DOI: 10.6084/m9.figshare.12878095.v1
title: Additional file 2 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 2: Hepa1c1c7 TCDD time course and cycloheximide cotreatment cDNA microarray data. A table containing the expression ratios relative to the time matched vehicle control for the time course study. Ratios for the cycloheximide studies are relative to the treatment condition. P1(t)-values represent posterior probabilities of activity on a per gene and time-point basis or treatment condition using the model-based t-value. (XLS 9 MB)
DOI: 10.6084/m9.figshare.12878119.v23
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878119.v27
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878029.v1
title: Additional file 10 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 10: Putative human secondary response genes and the number of DREs in their promoters. A table listing the putative secondary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 56 KB)
DOI: 10.6084/m9.figshare.12878047.v1
title: Additional file 16 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 16: Common differentially regulated orthologs elicited by TCDD in human HepG2 and mouse Hepa1c1c7 cells identified from the whole-genome Agilent microarrays at 24 hrs. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 40 KB)
DOI: 10.6084/m9.figshare.12878068
title: Additional file 21 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 21: Gene symbols and primer sequences for QRTPCR. A list of genes and primer sequences used to verify cDNA and Agilent microarray responses. (XLS 38 KB)
DOI: 10.6084/m9.figshare.12878104
title: Additional file 5 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 5: Common differentially regulated orthologs elicited by TCDD in rat H4IIE and mouse Hepa1c1c7 cells identified from the cDNA microarray time course studies. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 30 KB)
DOI: 10.6084/m9.figshare.12878119.v28
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878068.v1
title: Additional file 21 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 21: Gene symbols and primer sequences for QRTPCR. A list of genes and primer sequences used to verify cDNA and Agilent microarray responses. (XLS 38 KB)
DOI: 10.6084/m9.figshare.7958609
title: Brain and pneumatic cavities of the braincase of the basal alligatoroid <i>Diplocynodon tormis</i> (Eocene, Spain)

description: A well-preserved braincase of the basal alligatoroid <i>Diplocynodon tormis</i> was found in the middle Eocene site of ‘Teso de la Flecha,’ Salamanca, Spain. The specimen was scanned using computed tomography (CT), and its inner cavities were digitally rendered in three dimensions. Most bones of the left side are missing, so the reconstruction was based mainly on the right half of the braincase. The endocast of the brain cavity, nerves, part of the inner ear, and blood vessel canals was reconstructed, as well as a complex network of air-filled cavities around the hindbrain formed by the median pharyngeal sinus and pharyngotympanic sinus systems. Inner cavities of the skull are considered to be conservative structures. The comparison of this specimen with several extant crocodilians (Alligatoroidea, Crocodyloidea, and Gavialoidea) allows us to identify a neuroanatomical evolutionary pattern that matches current phylogenetic hypotheses. All internal cavities of the braincase of <i>Diplocynodon</i> are similar to those of other studied eusuchians, with some noteworthy differences in shape and size, particularly regarding the cerebrum and the paratympanic sinus system. <i>Diplocynodon tormis</i> shows a combination of alligatoroid synapomorphies and crocodylian symplesiomorphies in its internal cavities, consistent with its phylogenetic placement as a basal alligatoroid.
DOI: 10.6084/m9.figshare.12878107.v1
title: Additional file 6 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 6: Common differentially regulated orthologs elicited by TCDD in human HepG2 and rat H4IIE cells identified from the cDNA microarray time course studies. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 28 KB)
DOI: 10.6084/m9.figshare.12878095
title: Additional file 2 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 2: Hepa1c1c7 TCDD time course and cycloheximide cotreatment cDNA microarray data. A table containing the expression ratios relative to the time matched vehicle control for the time course study. Ratios for the cycloheximide studies are relative to the treatment condition. P1(t)-values represent posterior probabilities of activity on a per gene and time-point basis or treatment condition using the model-based t-value. (XLS 9 MB)
DOI: 10.6084/m9.figshare.12878107
title: Additional file 6 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 6: Common differentially regulated orthologs elicited by TCDD in human HepG2 and rat H4IIE cells identified from the cDNA microarray time course studies. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 28 KB)
DOI: 10.6084/m9.figshare.12878113.v1
title: Additional file 8 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 8: Putative mouse primary response genes and the number of DREs in their promoters. A table listing the putative primary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 51 KB)
DOI: 10.6084/m9.figshare.12878119
title: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional file of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells
DOI: 10.6084/m9.figshare.12878059
title: Additional file 1 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 1: HepG2 TCDD time course and cycloheximide cotreatment cDNA microarray data. A table containing the expression ratios relative to the time matched vehicle control for the time course study. Ratios for the cycloheximide studies are relative to the treatment condition. P1(t)-values represent posterior probabilities of activity on a per gene and time-point basis or treatment condition using the model-based t-value. (XLS 7 MB)
DOI: 10.6084/m9.figshare.12878104.v1
title: Additional file 5 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 5: Common differentially regulated orthologs elicited by TCDD in rat H4IIE and mouse Hepa1c1c7 cells identified from the cDNA microarray time course studies. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 30 KB)
DOI: 10.6084/m9.figshare.12878113
title: Additional file 8 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 8: Putative mouse primary response genes and the number of DREs in their promoters. A table listing the putative primary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 51 KB)
DOI: 10.6084/m9.figshare.7958609.v1
title: Brain and pneumatic cavities of the braincase of the basal alligatoroid <i>Diplocynodon tormis</i> (Eocene, Spain)

description: A well-preserved braincase of the basal alligatoroid <i>Diplocynodon tormis</i> was found in the middle Eocene site of ‘Teso de la Flecha,’ Salamanca, Spain. The specimen was scanned using computed tomography (CT), and its inner cavities were digitally rendered in three dimensions. Most bones of the left side are missing, so the reconstruction was based mainly on the right half of the braincase. The endocast of the brain cavity, nerves, part of the inner ear, and blood vessel canals was reconstructed, as well as a complex network of air-filled cavities around the hindbrain formed by the median pharyngeal sinus and pharyngotympanic sinus systems. Inner cavities of the skull are considered to be conservative structures. The comparison of this specimen with several extant crocodilians (Alligatoroidea, Crocodyloidea, and Gavialoidea) allows us to identify a neuroanatomical evolutionary pattern that matches current phylogenetic hypotheses. All internal cavities of the braincase of <i>Diplocynodon</i> are similar to those of other studied eusuchians, with some noteworthy differences in shape and size, particularly regarding the cerebrum and the paratympanic sinus system. <i>Diplocynodon tormis</i> shows a combination of alligatoroid synapomorphies and crocodylian symplesiomorphies in its internal cavities, consistent with its phylogenetic placement as a basal alligatoroid.
DOI: 10.6084/m9.figshare.12878098.v1
title: Additional file 3 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 3: H4IIE TCDD time course and cycloheximide cotreatment cDNA microarray data. A table containing the expression ratios relative to the time matched vehicle control for the time course study. Ratios for the cycloheximide studies are relative to the treatment condition. P1(t)-values represent posterior probabilities of activity on a per gene and time-point basis or treatment condition using the model-based t-value. (XLS 6 MB)
DOI: 10.6084/m9.figshare.12878101
title: Additional file 4 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 4: Common differentially regulated orthologs elicited by TCDD in human HepG2 and mouse Hepa1c1c7 cells identified from the cDNA microarray time course studies. A table containing the expression ratios for significantly differentially regulated orthologs (|fold change| &gt; 1.4 and P1(t) &gt; 0.999). (XLS 50 KB)
DOI: 10.6084/m9.figshare.12878110
title: Additional file 7 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 7: Putative human primary response genes and the number of DREs in their promoters. A table listing the putative primary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 62 KB)
DOI: 10.6084/m9.figshare.12878116
title: Additional file 9 of Differences in TCDD-elicited gene expression profiles in human HepG2, mouse Hepa1c1c7 and rat H4IIE hepatoma cells

description: Additional File 9: Putative rat primary response genes and the number of DREs in their promoters. A table listing the putative primary response genes identified from the cycloheximide studies and the number of 5'-GCGTG-3' DRE cores in the region 10 kb upstream and 1 kb downstream of a TSS. (XLS 32 KB)
DOI: 10.6084/m9.figshare.7958297
title: Conformational analysis of 4,7-dihydro-1,3-dioxepin-2-one (CBD CC) and its ring-opened adducts

description: Reactant monomers and their associated ring-opened adducts were subjected to conformational analysis using Schrodinger’s Maestro, Macromodel package. A OPLS3e forcefield was applied with no solvent. Conformers within a 15 kcal mol<sup>–1</sup> of the forcefield-calculated global minimum were selected for further analysis with density functional theory (DFT). Conformers within 2 kcal mol <sup>–1</sup> of the DFT calculated global minimum were included in a Boltzman weighting. Ring-strain values are reported as a Boltzman average of the relevant conformers.
DOI: 10.6084/m9.figshare.12878272
title: Additional file 3 of Accurate and exact CNV identification from targeted high-throughput sequence data

description: Additional file 3:Supplemental table S1. (XLS 20 KB)
DOI: 10.6084/m9.figshare.12878290.v3
title: Additional file of Accurate and exact CNV identification from targeted high-throughput sequence data

description: Additional file of Accurate and exact CNV identification from targeted high-throughput sequence data
DOI: 10.6084/m9.figshare.12878272.v1
title: Additional file 3 of Accurate and exact CNV identification from targeted high-throughput sequence data

description: Additional file 3:Supplemental table S1. (XLS 20 KB)
DOI: 10.6084/m9.figshare.7957865
title: Disambiguating the role of blood flow and global signal with partial information decomposition

description: Figures from the paper ' Disambiguating the role of blood flow and global signal with partial information decomposition'.https://www.biorxiv.org/content/10.1101/596247v2<br><br>
DOI: 10.6084/m9.figshare.7957865.v1
title: Disambiguating the role of blood flow and global signal with partial information decomposition

description: Figures from the paper ' Disambiguating the role of blood flow and global signal with partial information decomposition'.https://www.biorxiv.org/content/10.1101/596247v2<br><br>
DOI: 10.6084/m9.figshare.7957688
title: <i>Bacillus cereus</i> biofilm formation on central venous catheters of hospitalised cardiac patients

description: Formation of bacterial biofilms is a risk with many <i>in situ</i> medical devices. Biofilm-forming <i>Bacillus</i> species are associated with potentially life-threatening catheter-related blood stream infections in immunocompromised patients. Here, bacteria were isolated from biofilm-like structures within the lumen of central venous catheters (CVCs) from two patients admitted to cardiac hospital wards. Isolates belonged to the <i>Bacillus cereus</i> group, exhibited strong biofilm formation propensity, and mapped phylogenetically close to the <i>B. cereus</i> emetic cluster. Together, whole genome sequencing and quantitative PCR confirmed that the isolates constituted the same strain and possessed a range of genes important for and up-regulated during biofilm formation. Antimicrobial susceptibility testing demonstrated resistance to trimethoprim-sulphamethoxazole, clindamycin, penicillin and ampicillin. Inspection of the genome revealed several chromosomal β-lactamase genes and a sulphonamide resistant variant of <i>folP</i>. This study clearly shows that <i>B. cereus</i> persisting in hospital ward environments may constitute a risk factor from repeated contamination of CVCs.