cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6139619.v1
title: <sup>39</sup>Ar–<sup>40</sup>Ar data: Dating protracted fault activities: microstructures, microchemistry and geochronology of the Vaikrita Thrust, Main Central Thrust zone, Garhwal Himalaya, NW India

description: Thermometric and <sup>39</sup>Ar–<sup>40</sup>Ar data.
DOI: 10.6084/m9.figshare.6139469
title: Cell and gene data for testicular single-cell RNA-Seq

description: Tables containing additional information on genes and cell obtained from single-cell RNA-Seq analysis of mouse testis data. <br>SuppTableCells.xlsx contains the 10X Barcode as identifier, the replicate ID, position in the t-SNE plot, UMI and gene count per cell, the proportion of mitochondrial transcripts, cluster ID obtained by k-Means clustering (k=9), inferred cell type, and pseudotime information obtained using monocle and Scrat.<br>SuppTableGenes contains the average expression value, fold-change compared to other cell types, and p-value relative to other cell types for each gene that was expressed in the dataset. Throughout the data, the following abbreviations for cell types are used: Spg=spermatogonia, SC=spermatocytes, RS=round spermatids, ES=elongating spermatids, CS=condensed/condensing spermatids. In cases where several clusters were identified per cell type, the earlier cluster was designated as 1.<br>
DOI: 10.6084/m9.figshare.6139469.v1
title: Cell and gene data for testicular single-cell RNA-Seq

description: Tables containing additional information on genes and cell obtained from single-cell RNA-Seq analysis of mouse testis data. <br>SuppTableCells.xlsx contains the 10X Barcode as identifier, the replicate ID, position in the t-SNE plot, UMI and gene count per cell, the proportion of mitochondrial transcripts, cluster ID obtained by k-Means clustering (k=9), inferred cell type, and pseudotime information obtained using monocle and Scrat.<br>SuppTableGenes contains the average expression value, fold-change compared to other cell types, and p-value relative to other cell types for each gene that was expressed in the dataset.<br>
DOI: 10.6084/m9.figshare.6139352
title: Minimal example data for ampvis2

description: Minimal example files for demonstrating how to load raw data with the ampvis2 R package. <br>
DOI: 10.6084/m9.figshare.6139352.v2
title: Minimal example data for ampvis2

description: Minimal example files for demonstrating how to load raw data with the ampvis2 R package. <br>
DOI: 10.6084/m9.figshare.6139352.v1
title: Minimal example data for ampvis2

description: Minimal example files for demonstrating how to load raw data with the ampvis2 R package. <br>
DOI: 10.6084/m9.figshare.12221561
title: Factors associated with health facility delivery in Kitui County; A cross sectional study

description: This data collected from respondents on factors associated with delivery in a health facility or home delivery. a cross sectional study design. Ethical approval was sort from an institutional research and ethical committee
DOI: 10.6084/m9.figshare.12221561.v1
title: Factors associated with health facility delivery in Kitui County; A cross sectional study

description: This data collected from respondents on factors associated with delivery in a health facility or home delivery. a cross sectional study design. Ethical approval was sort from an institutional research and ethical committee
DOI: 10.6084/m9.figshare.6139307
title: MOESM7 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 7: Table S7. Proteins identification (NR, PR and TR).
DOI: 10.6084/m9.figshare.6139307.v1
title: MOESM7 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 7: Table S7. Proteins identification (NR, PR and TR).
DOI: 10.6084/m9.figshare.6139298
title: MOESM6 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 6: Table S6. Proteins differentially expressed between non-responders (NR + PR) and total responders (TR).
DOI: 10.6084/m9.figshare.6139298.v1
title: MOESM6 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 6: Table S6. Proteins differentially expressed between non-responders (NR + PR) and total responders (TR).
DOI: 10.6084/m9.figshare.6139292
title: MOESM5 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 5: Table S5. Proteins differentially expressed between non-responders (NR) and responders (PR+TR).
DOI: 10.6084/m9.figshare.6139292.v1
title: MOESM5 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 5: Table S5. Proteins differentially expressed between non-responders (NR) and responders (PR+TR).
DOI: 10.6084/m9.figshare.6139277
title: MOESM4 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 4: Table S4. Proteins differentially expressed between PR and PR.
DOI: 10.6084/m9.figshare.6139277.v1
title: MOESM4 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 4: Table S4. Proteins differentially expressed between PR and PR.
DOI: 10.6084/m9.figshare.6139268
title: MOESM3 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 3: Table S3. Proteins differentially expressed between NR and TR.
DOI: 10.6084/m9.figshare.6139268.v1
title: MOESM3 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 3: Table S3. Proteins differentially expressed between NR and TR.
DOI: 10.6084/m9.figshare.6139253
title: MOESM2 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 2: Table S2. Proteins differentially expressed between NR and PR.
DOI: 10.6084/m9.figshare.6139253.v1
title: MOESM2 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 2: Table S2. Proteins differentially expressed between NR and PR.
DOI: 10.6084/m9.figshare.6139244
title: MOESM1 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 1: Table S1. Proteins differentially expressed between NR, PR and TR.
DOI: 10.6084/m9.figshare.6139244.v1
title: MOESM1 of The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature

description: Additional file 1: Table S1. Proteins differentially expressed between NR, PR and TR.
DOI: 10.6084/m9.figshare.6139211
title: Supplementary Material for: Classification of Uniparental Isodisomy Patterns That Cause Autosomal Recessive Disorders: Proposed Mechanisms of Different Proportions and Parental Origin in Each Pattern

description: Patients with autosomal recessive (AR) disorders are usually born to parents both of whom are heterozygous carriers of the disease. However, in some instances only one of the parents is a carrier and a mutation is segregated to the patient through uniparental isodisomy (UPiD). Recently, an increasing number of such case reports has been published, and it has become clear that there are several different UPiD patterns that cause AR disorders. In this article, we report 3 remarkable patients with different patterns of UPiD. We then review 85 cases collected in the literature. We realized that they can be classified into 3 patterns: UPiD of the whole chromosome, segmental UPiD with uniparental heterodisomy (UPhD), and segmental UPiD caused by post-zygotic mitotic recombination (MiRe). Whole chromosomal UPiD accounted for the majority of cases, with paternal origin accounting for approximately twice as many cases as maternal origin. Most cases of segmental UPiD with UPhD were of maternal origin, with a dominancy of nondisjunction in meiosis I, while segmental UPiD through MiRe is the smallest pattern with equal parental origin. These differences in proportion and parental origin in each pattern can be explained by considering nondisjunction during oogenesis as the starting point and UPiD as subsequent events.
DOI: 10.6084/m9.figshare.6139199
title: output.sort.bam.bai

description: ooijlkl
DOI: 10.6084/m9.figshare.6139199.v1
title: output.sort.bam.bai

description: ooijlkl
DOI: 10.6084/m9.figshare.6139181
title: Supplementary Material for: Noninflammatory Diffuse Follicular Hypertrophy/Hyperplasia of Graves Disease: Morphometric Evaluation in an Experimental Mouse Model

description: <b><i>Objectives:</i></b> Experimental models of Graves hyperthyroid disease accompanied by Graves orbitopathy (GO) can be efficiently induced in susceptible inbred strains of mice by immunization by electroporation of heterologous human TSH receptor (TSHR) A-subunit plasmid. The interrelated pathological findings in the thyroid glands of Graves disease (GD) that explain the core changes classically include diffuse follicular hyperplasia and multifocal mild lymphocytic infiltrate. However, the relative contributions of different thyroid tissue components (colloid, follicular cells, and stroma) have not been previously evaluated. In this study, we characterize the thyroid gland of an experimental mouse model of autoimmune GD. Our objective was to define the relative contribution of the different thyroid tissue components to the pathology of glands in the experimental model. <b><i>Methods:</i></b> Mice were immunized with human TSHR A-subunit plasmid. Antibodies induced to human TSHR were pathogenic in vivo due to their cross-reactivity to mouse TSHR. <b><i>Results:</i></b> Autoimmune thyroid disease in the model was characterized by histopathology of hyperplastic glands with large follicular cells. Further examination of thyroid glands of immunized animals revealed a significantly increased follicular area and follicle/stroma ratio, morphometrically correlated with a noninflammatory follicular hyperplasia/hypertrophy. The increased follicle/stroma ratio was the most relevant morphometrically variable summarizing the pathological changes for screening purposes. <b><i>Conclusion:</i></b> GD thyroid glands are enlarged and characterized by a noninflammatory diffuse follicular cell hyperplasia/hypertrophy and a significant increase in the follicles with an increased follicle/stroma ratio. Overall, this mouse model is a faithful model of an early hyperthyroid status of GD (diffuse glandular involvement and follicular expansion).
DOI: 10.6084/m9.figshare.6139181.v1
title: Supplementary Material for: Noninflammatory Diffuse Follicular Hypertrophy/Hyperplasia of Graves Disease: Morphometric Evaluation in an Experimental Mouse Model

description: <b><i>Objectives:</i></b> Experimental models of Graves hyperthyroid disease accompanied by Graves orbitopathy (GO) can be efficiently induced in susceptible inbred strains of mice by immunization by electroporation of heterologous human TSH receptor (TSHR) A-subunit plasmid. The interrelated pathological findings in the thyroid glands of Graves disease (GD) that explain the core changes classically include diffuse follicular hyperplasia and multifocal mild lymphocytic infiltrate. However, the relative contributions of different thyroid tissue components (colloid, follicular cells, and stroma) have not been previously evaluated. In this study, we characterize the thyroid gland of an experimental mouse model of autoimmune GD. Our objective was to define the relative contribution of the different thyroid tissue components to the pathology of glands in the experimental model. <b><i>Methods:</i></b> Mice were immunized with human TSHR A-subunit plasmid. Antibodies induced to human TSHR were pathogenic in vivo due to their cross-reactivity to mouse TSHR. <b><i>Results:</i></b> Autoimmune thyroid disease in the model was characterized by histopathology of hyperplastic glands with large follicular cells. Further examination of thyroid glands of immunized animals revealed a significantly increased follicular area and follicle/stroma ratio, morphometrically correlated with a noninflammatory follicular hyperplasia/hypertrophy. The increased follicle/stroma ratio was the most relevant morphometrically variable summarizing the pathological changes for screening purposes. <b><i>Conclusion:</i></b> GD thyroid glands are enlarged and characterized by a noninflammatory diffuse follicular cell hyperplasia/hypertrophy and a significant increase in the follicles with an increased follicle/stroma ratio. Overall, this mouse model is a faithful model of an early hyperthyroid status of GD (diffuse glandular involvement and follicular expansion).
DOI: 10.6084/m9.figshare.6139160
title: Supplementary Material for: Gray Matter Heterotopia, Mental Retardation, Developmental Delay, Microcephaly, and Facial Dysmorphisms in a Boy with Ring Chromosome 6: A 10-Year Follow-Up and Literature Review

description: Ring chromosome 6, r(6), is an extremely rare cytogenetic abnormality with clinical heterogeneity which arises typically de novo. The phenotypes of r(6) can be highly variable, ranging from almost normal to severe malformations and neurological defects. Up to now, only 33 cases have been reported in the literature. In this 10-year follow-up study, we report a case presenting distinctive facial features, severe developmental delay, and gray matter heterotopia with r(6) and terminal deletions of 6p25.3 (115426-384174, 268 kb) and 6q26-27 (168697778-170732033, 2.03 Mb) encompassing 2 and 15 candidate genes, respectively, which were detected using G-banding karyotyping, FISH, and chromosomal microarray analysis. We also analyzed the available information on the clinical features of the reported r(6) cases in order to provide more valuable information on genotype-phenotype correlations. To the best of our knowledge, this is the first report of gray matter heterotopia manifested in a patient with r(6) in China, and the deletions of 6p and 6q in our case are the smallest with the precise size of euchromatic material loss currently known.
DOI: 10.6084/m9.figshare.6139160.v1
title: Supplementary Material for: Gray Matter Heterotopia, Mental Retardation, Developmental Delay, Microcephaly, and Facial Dysmorphisms in a Boy with Ring Chromosome 6: A 10-Year Follow-Up and Literature Review

description: Ring chromosome 6, r(6), is an extremely rare cytogenetic abnormality with clinical heterogeneity which arises typically de novo. The phenotypes of r(6) can be highly variable, ranging from almost normal to severe malformations and neurological defects. Up to now, only 33 cases have been reported in the literature. In this 10-year follow-up study, we report a case presenting distinctive facial features, severe developmental delay, and gray matter heterotopia with r(6) and terminal deletions of 6p25.3 (115426-384174, 268 kb) and 6q26-27 (168697778-170732033, 2.03 Mb) encompassing 2 and 15 candidate genes, respectively, which were detected using G-banding karyotyping, FISH, and chromosomal microarray analysis. We also analyzed the available information on the clinical features of the reported r(6) cases in order to provide more valuable information on genotype-phenotype correlations. To the best of our knowledge, this is the first report of gray matter heterotopia manifested in a patient with r(6) in China, and the deletions of 6p and 6q in our case are the smallest with the precise size of euchromatic material loss currently known.
DOI: 10.6084/m9.figshare.6139157
title: Microbiome data_ESM from Urea hydrolysis by gut bacteria in a hibernating frog: evidence for urea-nitrogen recycling in Amphibia

description: Supporting microbiome data
DOI: 10.6084/m9.figshare.6139157.v1
title: Microbiome data_ESM from Urea hydrolysis by gut bacteria in a hibernating frog: evidence for urea-nitrogen recycling in Amphibia

description: Supporting microbiome data
DOI: 10.6084/m9.figshare.6139145
title: Morphology Physiology data_ESM from Urea hydrolysis by gut bacteria in a hibernating frog: evidence for urea-nitrogen recycling in Amphibia

description: Supporting morphology and physiology data
DOI: 10.6084/m9.figshare.6139145.v1
title: Morphology Physiology data_ESM from Urea hydrolysis by gut bacteria in a hibernating frog: evidence for urea-nitrogen recycling in Amphibia

description: Supporting morphology and physiology data
DOI: 10.6084/m9.figshare.6139100
title: Raw data for the figures in the manuscript from Reduced graphene oxide-loaded nanocomposite scaffolds for enhancing angiogenesis in tissue engineering applications

description: MS-Excel file with the raw data for all the figures in the manuscript
DOI: 10.6084/m9.figshare.6139100.v1
title: Raw data for the figures in the manuscript from Reduced graphene oxide-loaded nanocomposite scaffolds for enhancing angiogenesis in tissue engineering applications

description: MS-Excel file with the raw data for all the figures in the manuscript
DOI: 10.6084/m9.figshare.6139085
title: Morphometric analysis of Eocene nummulitids in western and central Cuba: taxonomy, biostratigraphy and evolutionary trends

description: Megalospheric specimens of Nummulitidae from eight localities in western and central Cuba were morphometrically investigated using test characters described by 11 growth-independent and growth-invariant attributes that provide a complete geometric reconstruction of nummulitid equatorial morphology. The species <i>Nummulites striatoreticulatus</i>, <i>Palaeonummulites trinitatensis</i>, <i>Operculinoides floridensis</i> and <i>O. soldadensis</i> were classified by an agglomerative cluster analysis. Discriminant analysis yielded significant morphological separators between the species such as the backbend angle, marginal radius increase, perimeter ratio and first chamber length. The transition of tightness to laxity of the spiral was an important morphological separator at the generic level, representing a clear general trend coupled with the change in palaeodepth. Based on further discriminant analysis, an increase in proloculus size was detected in <i>Nummulites striatoreticulatus</i> from the middle Eocene to early late Eocene, supporting this important evolutionary pattern in many lineages of <i>Nummulites</i>. Operculinid forms showed an opposite and more weakly pronounced time-dependent trend in the size decrease of the proloculus. In the Cuban localities, <i>Nummulites striatoreticulatus</i> occurs from the Lutetian to Priabonian, while <i>Palaeonummulites trinitatensis</i> is restricted to the Bartonian to Priabonian. The moderately to loosely coiled operculinid taxa <i>O. floridensis</i> and <i>O. soldadensis</i> have longer stratigraphical ranges from the middle Eocene to probably the early Oligocene. <i>Operculinoides floridensis</i> and <i>O. soldadensis</i> show a broader variability in marginal radius increase, and thus probably occupied wider niches than <i>N. striatoreticulatus</i>. The latter seems to be restricted to the shelf edge and to the shallowest parts of the upper slope. A possible phylogenetic connection between <i>Heterostegina</i> and <i>Operculinoides</i> is suggested by the closest equatorial morphology of <i>Heterostegina</i> sp. indet. to tightly coiled forms of <i>Operculinoides floridensis</i>. Discriminant analysis documents the strongest similarities in perimeter ratio, backbend angle, initial marginal radius and proloculus mean diameter.
DOI: 10.6084/m9.figshare.6139085.v1
title: Morphometric analysis of Eocene nummulitids in western and central Cuba: taxonomy, biostratigraphy and evolutionary trends

description: Megalospheric specimens of Nummulitidae from eight localities in western and central Cuba were morphometrically investigated using test characters described by 11 growth-independent and growth-invariant attributes that provide a complete geometric reconstruction of nummulitid equatorial morphology. The species <i>Nummulites striatoreticulatus</i>, <i>Palaeonummulites trinitatensis</i>, <i>Operculinoides floridensis</i> and <i>O. soldadensis</i> were classified by an agglomerative cluster analysis. Discriminant analysis yielded significant morphological separators between the species such as the backbend angle, marginal radius increase, perimeter ratio and first chamber length. The transition of tightness to laxity of the spiral was an important morphological separator at the generic level, representing a clear general trend coupled with the change in palaeodepth. Based on further discriminant analysis, an increase in proloculus size was detected in <i>Nummulites striatoreticulatus</i> from the middle Eocene to early late Eocene, supporting this important evolutionary pattern in many lineages of <i>Nummulites</i>. Operculinid forms showed an opposite and more weakly pronounced time-dependent trend in the size decrease of the proloculus. In the Cuban localities, <i>Nummulites striatoreticulatus</i> occurs from the Lutetian to Priabonian, while <i>Palaeonummulites trinitatensis</i> is restricted to the Bartonian to Priabonian. The moderately to loosely coiled operculinid taxa <i>O. floridensis</i> and <i>O. soldadensis</i> have longer stratigraphical ranges from the middle Eocene to probably the early Oligocene. <i>Operculinoides floridensis</i> and <i>O. soldadensis</i> show a broader variability in marginal radius increase, and thus probably occupied wider niches than <i>N. striatoreticulatus</i>. The latter seems to be restricted to the shelf edge and to the shallowest parts of the upper slope. A possible phylogenetic connection between <i>Heterostegina</i> and <i>Operculinoides</i> is suggested by the closest equatorial morphology of <i>Heterostegina</i> sp. indet. to tightly coiled forms of <i>Operculinoides floridensis</i>. Discriminant analysis documents the strongest similarities in perimeter ratio, backbend angle, initial marginal radius and proloculus mean diameter.
DOI: 10.17028/rd.lboro.6139067
title: Data for VOLCO a predictive model for 3D printed microarchitecture

description: Data for the research article “VOLCO: a predictive model for 3D printed microarchitecture”
DOI: 10.6084/m9.figshare.6139052
title: Experimental Results for Sound Value Iteration

description: This file contains the experimental results for the paper<br>"Sound Value Iteration"<br>by Tim Quatmann and Joost-Pieter Katoen presented at CAV 2018.<br><br>- The directory ./models contains all model files (in the PRISM input language) and the corresponding properties that were considered in the paper.<br>- The directory ./logs/ contains all obtained logfiles, i.e., the output generated by Storm and Prism, respectively.<br>- The file ./data.csv lists model checking times and the number of performed iterations as extracted from the logfiles.