cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11555565
title: A new genus and species of sabretooth, <i>Oriensmilus liupanensis</i> (Barbourofelinae, Nimravidae, Carnivora), from the middle Miocene of China suggests barbourofelines are nimravids, not felids

description: Since the early 2000s, a revival of a felid relationship for barbourofeline sabretooths has become popular due to recent discoveries of fragmentary fossils from Africa. According to this view, barbourofelines trace their common ancestor with felids through shared similarities in dental morphology going back to the early Miocene of Africa and Europe. However, whether or not such an idea is represented in the basicranial morphology, a conservative area of high importance in family-level relationships, is yet to be tested. A nearly complete skull of <i>Oriensmilus liupanensis</i> gen. and sp. nov. from the middle Miocene Tongxin Basin of northern China represents the most primitive known barbourofeline with an intact basicranial region, affording an opportunity to re-examine the relationship of felids and nimravines. We also present an update on East Asian records of barbourofelines. The new skull of <i>Oriensmilus</i> possesses a suite of characters shared with nimravines, such as the lack of an ossified (entotympanic) bullar floor, absence of an intrabullar septum, lack of a ventral promontorial process of the petrosal, presence of a small rostral entotympanic on the dorsal side of the caudal entotympanic, and a distinct caudal entry of the internal carotid artery and nerve that pierces the caudal entotympanic at the junction of the ossified and unossified caudal entotympanics. The absence of an ossified bullar floor in <i>O. liupanensis</i> and its presence in those from the middle Miocene of Sansan, France thus help to bracket the transition of this character, which must have happened in the early part of the middle Miocene. Spatial relationships between bullar construction and the middle ear configuration of the carotid artery in <i>Oriensmilus</i> strongly resemble those in nimravines but are distinctly different from felids and other basal feliforms. Despite the attractive notion that early barbourofelines arose from a Miocene ancestor that also gave rise to felids, the basicranial evidence argues against this view. http://zoobank.org/urn:http://lsid:zoobank.org:pub:2DE98DBC-4D02-4E18-9788-0B0D8587E73F
DOI: 10.6084/m9.figshare.11555565.v1
title: A new genus and species of sabretooth, <i>Oriensmilus liupanensis</i> (Barbourofelinae, Nimravidae, Carnivora), from the middle Miocene of China suggests barbourofelines are nimravids, not felids

description: Since the early 2000s, a revival of a felid relationship for barbourofeline sabretooths has become popular due to recent discoveries of fragmentary fossils from Africa. According to this view, barbourofelines trace their common ancestor with felids through shared similarities in dental morphology going back to the early Miocene of Africa and Europe. However, whether or not such an idea is represented in the basicranial morphology, a conservative area of high importance in family-level relationships, is yet to be tested. A nearly complete skull of <i>Oriensmilus liupanensis</i> gen. and sp. nov. from the middle Miocene Tongxin Basin of northern China represents the most primitive known barbourofeline with an intact basicranial region, affording an opportunity to re-examine the relationship of felids and nimravines. We also present an update on East Asian records of barbourofelines. The new skull of <i>Oriensmilus</i> possesses a suite of characters shared with nimravines, such as the lack of an ossified (entotympanic) bullar floor, absence of an intrabullar septum, lack of a ventral promontorial process of the petrosal, presence of a small rostral entotympanic on the dorsal side of the caudal entotympanic, and a distinct caudal entry of the internal carotid artery and nerve that pierces the caudal entotympanic at the junction of the ossified and unossified caudal entotympanics. The absence of an ossified bullar floor in <i>O. liupanensis</i> and its presence in those from the middle Miocene of Sansan, France thus help to bracket the transition of this character, which must have happened in the early part of the middle Miocene. Spatial relationships between bullar construction and the middle ear configuration of the carotid artery in <i>Oriensmilus</i> strongly resemble those in nimravines but are distinctly different from felids and other basal feliforms. Despite the attractive notion that early barbourofelines arose from a Miocene ancestor that also gave rise to felids, the basicranial evidence argues against this view. http://zoobank.org/urn:http://lsid:zoobank.org:pub:2DE98DBC-4D02-4E18-9788-0B0D8587E73F
DOI: 10.6084/m9.figshare.13126577
title: Additional file 4 of Pan-cancer analysis of differential DNA methylation patterns

description: Additional file 4 Table S5B. Enrichment results of functional analysis using the GREAT tool for the remaining 36 PanDM clusters (FDRs are smaller than 0.05; folds of enrichment are larger than 2 for both the binomial and hypergeometric-distribution-based tests). (Excel)
DOI: 10.6084/m9.figshare.13126580.v1
title: Additional file 5 of Pan-cancer analysis of differential DNA methylation patterns

description: Additional file 5 Table S6. Distribution of X-chromosome-located CpG sites in the 37 PanDM clusters. The proportion of X-chromosome-located CpG sites included in each cluster is also given. A hypergeometric test is conducted to investigate the significance of enrichment for the X-chromosome-located CpG sites in each PanDM cluster. The corresponding p-values and FDRs are recorded in the last two columns of the table. (Excel)
DOI: 10.6084/m9.figshare.13126574
title: Additional file 3 of Pan-cancer analysis of differential DNA methylation patterns

description: Additional file 3 Table S5A. Enrichment results of functional analysis using the GREAT tool for PanDM cluster 33 (FDRs are smaller than 0.05 for both the binomial and hypergeometric-distribution-based tests). (Excel)
DOI: 10.6084/m9.figshare.13126571.v1
title: Additional file 2 of Pan-cancer analysis of differential DNA methylation patterns

description: Additional file 2 Table S4. PanDM cluster membership for the 396,065 CpG sites. (TXT)
DOI: 10.6084/m9.figshare.13126574.v1
title: Additional file 3 of Pan-cancer analysis of differential DNA methylation patterns

description: Additional file 3 Table S5A. Enrichment results of functional analysis using the GREAT tool for PanDM cluster 33 (FDRs are smaller than 0.05 for both the binomial and hypergeometric-distribution-based tests). (Excel)
DOI: 10.6084/m9.figshare.14173887.v1
title: Additional file 11 of High-generation near-isogenic lines combined with multi-omics to study the mechanism of polima cytoplasmic male sterility

description: Additional file 11: Table S6. Transcriptome differential gene KEGG enrichment analysis
DOI: 10.6084/m9.figshare.14173905
title: Additional file 6 of High-generation near-isogenic lines combined with multi-omics to study the mechanism of polima cytoplasmic male sterility

description: Additional file 6: Table S1. Significantly different metabolites of the metabolome
DOI: 10.6084/m9.figshare.14173911
title: Additional file 8 of High-generation near-isogenic lines combined with multi-omics to study the mechanism of polima cytoplasmic male sterility

description: Additional file 8: Table S3. Significantly different proteins of proteome
DOI: 10.6084/m9.figshare.14173908
title: Additional file 7 of High-generation near-isogenic lines combined with multi-omics to study the mechanism of polima cytoplasmic male sterility

description: Additional file 7: Table S2. Significantly different genes of transcription
DOI: 10.6084/m9.figshare.13126706
title: Additional file 3 of Improving lung cancer risk stratification leveraging whole transcriptome RNA sequencing and machine learning across multiple cohorts

description: Additional file 3. Gene Ontology biological processes overrepresented in gene modules identified from the gene co-expression network.)
DOI: 10.6084/m9.figshare.13126706.v1
title: Additional file 3 of Improving lung cancer risk stratification leveraging whole transcriptome RNA sequencing and machine learning across multiple cohorts

description: Additional file 3. Gene Ontology biological processes overrepresented in gene modules identified from the gene co-expression network.)
DOI: 10.21227/rp98-pm65
title: I-V Analysis of photodetector for different wavelength 

description: This The present letter proposes Al/Graphene Oxide (GO)/WSe2/ITO heterojunction based visible-NIR photodetector fabricated by the low-cost solution method. The p-type WSe2 makes a heterostructure with the n-type Graphene Oxide (GO) material deposited over ITO coated PET substrate. The developed device results in a very high  responsivity (A/W)  and external quantum efficiency (EQE) value of 8000 and 1150, 1.5 x 106 % and 0.09 x 106 %,  at 650nm (Vis) and 1500nm (NIR) wavelength (at -2V bias).
DOI: 10.6084/m9.figshare.13126730.v1
title: Additional file 8 of Stage-specific protein-domain mutational profile of invasive ductal breast cancer

description: Additional file 8 Table S6: 11 protein complexes and signaling pathways identified by network enrichment analysis.
DOI: 10.6084/m9.figshare.13126718.v1
title: Additional file 4 of Stage-specific protein-domain mutational profile of invasive ductal breast cancer

description: Additional file 4 Table S2: (Related to Table 1) The gene lists output from MutSigCV2.
DOI: 10.6084/m9.figshare.13126703
title: Additional file 2 of Improving lung cancer risk stratification leveraging whole transcriptome RNA sequencing and machine learning across multiple cohorts

description: Additional file 2. Cell type signature gene lists.
DOI: 10.6084/m9.figshare.13126703.v1
title: Additional file 2 of Improving lung cancer risk stratification leveraging whole transcriptome RNA sequencing and machine learning across multiple cohorts

description: Additional file 2. Cell type signature gene lists.
DOI: 10.6084/m9.figshare.13126715.v1
title: Additional file 3 of Stage-specific protein-domain mutational profile of invasive ductal breast cancer

description: Additional file 3 Table S1: (Related to Fig. 1) The mutational and clinical information for 468 patients.
DOI: 10.6084/m9.figshare.13126718
title: Additional file 4 of Stage-specific protein-domain mutational profile of invasive ductal breast cancer

description: Additional file 4 Table S2: (Related to Table 1) The gene lists output from MutSigCV2.
DOI: 10.6084/m9.figshare.13126727.v1
title: Additional file 7 of Stage-specific protein-domain mutational profile of invasive ductal breast cancer

description: Additional file 7 Table S5: (Related to Fig. 2) The identified 22 protein domains.
DOI: 10.6084/m9.figshare.19418277
title: Additional file 1 of Analysis of the relationship between phenotypes and genotypes in 60 Chinese patients with propionic acidemia: a fourteen-year experience at a tertiary hospital

description: Additional file 1. An Excel sheet (.xls) named “Detailed data of every patient” describes the detailed information on biallelic variants and corresponding clinical characteristics of every patient with propionic acidemia in this study.
DOI: 10.6084/m9.figshare.19418284
title: Additional file 10 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 9. Gini scores of all ASVs in the classification-based prediction of HRT phases.
DOI: 10.6084/m9.figshare.6834860.v4
title: Covariate-Adjusted Tensor Classification in High Dimensions

description: In contemporary scientific research, it is often of great interest to predict a categorical response based on a high-dimensional tensor (i.e., multi-dimensional array) and additional covariates. Motivated by applications in science and engineering, we propose a comprehensive and interpretable discriminant analysis model, called the CATCH model (short for covariate-adjusted tensor classification in high-dimensions). The CATCH model efficiently integrates the covariates and the tensor to predict the categorical outcome. It also jointly explains the complicated relationships among the covariates, the tensor predictor, and the categorical response. The tensor structure is used to achieve easy interpretation and accurate prediction. To tackle the new computational and statistical challenges arising from the intimidating tensor dimensions, we propose a penalized approach to select a subset of the tensor predictor entries that affect classification after adjustment for the covariates. An efficient algorithm is developed to take advantage of the tensor structure in the penalized estimation. Theoretical results confirm that the proposed method achieves variable selection and prediction consistency, even when the tensor dimension is much larger than the sample size. The superior performance of our method over existing methods is demonstrated in extensive simulated and real data examples. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.13126721.v1
title: Additional file 5 of Stage-specific protein-domain mutational profile of invasive ductal breast cancer

description: Additional file 5 Table S3: (Related to Fig. 2) The 1,217 domains that mutated in IDBC.
DOI: 10.6084/m9.figshare.23612485.v1
title: Additional file 5 of Exploring an immune cells-related molecule in STEMI by bioinformatics analysis

description: Supplementary Material 5
DOI: 10.6084/m9.figshare.19418287
title: Additional file 11 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 10. Experimental summary and metadata table of all process parameters.
DOI: 10.6084/m9.figshare.19418299
title: Additional file 5 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 4: Dataset S2. Functional annotations of xylose fermentation for MAGs with the same taxonomy as HRT bioindicators.
DOI: 10.6084/m9.figshare.19418308.v1
title: Additional file 8 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 7: Dataset S5. Functional annotations of chain elongation for all MAGs.
DOI: 10.6084/m9.figshare.13126730
title: Additional file 8 of Stage-specific protein-domain mutational profile of invasive ductal breast cancer

description: Additional file 8 Table S6: 11 protein complexes and signaling pathways identified by network enrichment analysis.
DOI: 10.6084/m9.figshare.19418284.v1
title: Additional file 10 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 9. Gini scores of all ASVs in the classification-based prediction of HRT phases.
DOI: 10.6084/m9.figshare.19418305
title: Additional file 7 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 6: Dataset S4. Functional annotations of xylose fermentation for all MAGs.
DOI: 10.6084/m9.figshare.19418311
title: Additional file 9 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 8. ASV and taxonomy table.
DOI: 10.6084/m9.figshare.19418277.v1
title: Additional file 1 of Analysis of the relationship between phenotypes and genotypes in 60 Chinese patients with propionic acidemia: a fourteen-year experience at a tertiary hospital

description: Additional file 1. An Excel sheet (.xls) named “Detailed data of every patient” describes the detailed information on biallelic variants and corresponding clinical characteristics of every patient with propionic acidemia in this study.
DOI: 10.6084/m9.figshare.19418296
title: Additional file 4 of Machine learning-assisted identification of bioindicators predicts medium-chain carboxylate production performance of an anaerobic mixed culture

description: Additional file 3: Dataset S1. MAGs taxonomy and genome metrics.
DOI: 10.15151/esrf-es-1409499409
title: Belgium BAG

description: The Belgium BAG includes groups situated at four Flemish universities: Antwerpen, Brussels, Ghent and Leuven. The proposed projects are highly diverse, including viral, prokaryotic and eukaryotic proteins with a strong focus on targets and processes of biomedical relevance. Many projects deal with membrane proteins, cell surface receptors and protein-protein complexes. Central to the research in the BAG associated groups is the employment of integrative methods in structural biology combining X-ray crystallography, SAXS, and electron microscopy. Many crystals in the various proposed projects are small in size and radiation sensitive, requiring the use of the high brilliance MX beam lines, preferably with micro-focused X-rays.
DOI: 10.15151/esrf-es-1434740347
title: The Institute of Structural and Molecular Biology (ISMB) application for beam time, comprising groups from Birkbeck College, UCL and the Que

description: The ISMB spans Birkbeck and UCL with researchers in the core Departments at Birkbeck Biological Sciences and several UCL Research Departments.
Research groups from Queen Mary University of London (QMUL) and Kingston University (KU) are joint co-applicants as they have strong links and collaborations with groups from ISMB. All groups share common interests in disciplines including structural, chemical, molecular and cell biology; using multidisciplinary andmultiscalar approaches. ISMB, UCL, QMUL and KU investigators, ranging from early-career research fellows to internationally-established senior academics, apply X-ray crystallography carried out mainly at our Wellcome funded facility at Birkbeck, as an essential method enabling: i) description of the atomic-level mechanistic details of macromolecules and macromolecular machines, and ii) structure-based drug discovery, while iii) complementing and supporting cryoelectron microscopy (cryo-EM) projects.
DOI: 10.15151/esrf-es-1432221089
title: A synchrotron-based biomechanical and bone microstructural approach to investigate the origin of tetrapod bipedalism

description: Bipedalism represents one of the most striking forms of locomotor convergence in the history of terrestrial tetrapods. However, it remains unclear whether bipedalism occurred because it conveyed an adaptive advantage over quadrupedal locomotion or that it may have simply resulted as a biomechanical consequence of higher acceleration, or if it was the result of multiple factors. The oldest taxa hypothesized to have employed bipedalism date back to the early Permian, including Eudibamus cursoris and Cabarzia trostheidei. Nonetheless, interpretations regarding the bipedal aptitude of these species have primarily leaned on rather subjective evidence, and this hypothesis has never been tested directly using rigorous biomechanical analyses. The current project thus aims at better understanding the morphofunctional abilities of these species, and to test the degree of their proposed bipedalism using innovative biomechanical analyses combined with paleohistological and ichnological data.
DOI: 10.15151/esrf-es-1434390643
title: A microfocus time-resolved mapping study of levitated model respiratory droplets during water loss: diffusion and surface effects to underst

description: We will study mm-scale droplets of a model respiratory aerosols containing the lung surfactants DPPC and POPC , using microfocus SAXS in a controlled humidity acoustic levitation cell. Temporal and spatial changes in orientation and lattice parameter of the self-assembled surfactant phases throughout the droplet will give insights into water diffusion through and out of the droplet. These are large unknowns in understanding the behaviour of respiratory aerosols after exhalation, key to understanding persistence and spread of airborne pathogens, but the role of the surfactant components and their self-assembly has not been considered. The experimental and modelling methodology is similar to our previous published work on self-assembly of droplets of model lipids and fatty acids from cooking emissions, from a technique development and environmental perspective.
DOI: 10.6084/m9.figshare.19418341.v1
title: Additional file 3 of Physiology and metabonomics reveal differences in drought resistance among soybean varieties

description: Additional file 3: Table S1. Metabolites identified in HN44.
DOI: 10.15151/esrf-es-1424922642
title: HUB Proposal: Human Organ Atlas Hub (HOAHub)

description: This HOAHub will create a physical and virtual Hub which uses HiP-CT to scan whole human organs with local cellular resolution, producing a “Human Organ Atlas in Health and Disease”. It will bridge clinical imaging (centimetre scale) to molecular modalities (nanometer scale), providing unprecedented insights into our bodies, helping cure or mitigate diseases from neuro-degeneration to cancer. The HOAHub will bring together interdisciplinary groups to produce the novel experimental and computational technologies needed to analyse and interpret the scale-bridging data. By transforming HiP-CT into an efficient tool, HOAHub will enable the clinical impact of synchrotron imaging to be realised. Through these scientific and technical efficiencies, HOAHub will not only advance biological, computational and medical fields, it will provide anatomical training resources and a new Gold Standard for validating CT, MRI and 3D histology, inspiring new techniques and real-world clinical insights.
DOI: 10.15151/esrf-es-1432598956
title: Magneto-structural fluctuations related to the Invar effect in Fe-based bulk metallic glasses

description: The crystalline ferromagnetic Fe65Ni35 alloy is known for its very low (almost zero) and constant thermal expansion coefficient below Curie temperature. This effect, named Invar effect, has been found in various ordered and random crystalline alloys. There is no unified explanation of the Invar effect in the field of magnetism and the full understanding is still lacking. A common explanation involves two local atomic arrangements of Fe that differ in their spin configuration and also their volume, however, there is no agreement on the exact nature of these arrangements. Fluctuations between these configurations are said to counteract thermal expansion.
Measuring the atomic-scale thermal expansion at cryogenic temperatures will provide insights into their existence and nature of different magneto-structural
fluctuations in Fe-based bulk metallic glasses as well as uncovering the influence of rare-earth elements on the Invar effect.
DOI: 10.6084/m9.figshare.19418347
title: Additional file 4 of Physiology and metabonomics reveal differences in drought resistance among soybean varieties

description: Additional file 4: Table S2. Metabolites identified in HN65.
DOI: 10.15151/esrf-es-1432600756
title: High pressure synthesis of new As and Sb nitrides in the Mbar pressure range

description: This proposal is aimed at exploring the high pressure chemistry of As and Sb in the Mbar pressure range.
DOI: 10.6084/m9.figshare.19418347.v1
title: Additional file 4 of Physiology and metabonomics reveal differences in drought resistance among soybean varieties

description: Additional file 4: Table S2. Metabolites identified in HN65.