cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20267353
title: Additional file 3 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 3 Lists of unique proteins detected and quantified within frontal and temporal cortical tissues for the RiMOD-FTD genetic subtypes. Proteins were selected using quality filtering on peptide level (q ≤10-3 in at least 50% of samples per group, i.e. NDC or FTD). For every protein, the raw fold change, raw p-value, multiple comparison corrected q-value, and effect size (d) are given for the statistical comparison between NDC and FTD subtype. In addition, columns are included which note whether a protein has passed statistical testing (either p &lt; 0.05 or q &lt; 0.05). Furthermore, the differential expression of several well-known neurodegeneration (ND)-related proteins in frontal cortical FTD-GRN vs NDC and temporal cortical FTD-MAPT vs NDC are highlighted. -; not detected within study cohort.
DOI: 10.6084/m9.figshare.20267353.v1
title: Additional file 3 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 3 Lists of unique proteins detected and quantified within frontal and temporal cortical tissues for the RiMOD-FTD genetic subtypes. Proteins were selected using quality filtering on peptide level (q ≤10-3 in at least 50% of samples per group, i.e. NDC or FTD). For every protein, the raw fold change, raw p-value, multiple comparison corrected q-value, and effect size (d) are given for the statistical comparison between NDC and FTD subtype. In addition, columns are included which note whether a protein has passed statistical testing (either p &lt; 0.05 or q &lt; 0.05). Furthermore, the differential expression of several well-known neurodegeneration (ND)-related proteins in frontal cortical FTD-GRN vs NDC and temporal cortical FTD-MAPT vs NDC are highlighted. -; not detected within study cohort.
DOI: 10.6084/m9.figshare.20267359
title: Additional file 5 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 5 Lists of significant GO enrichment analysis results for proteins differentially expressed in frontal cortical FTD-GRN vs NDC and temporal cortical FTD-MAPT vs NDC. GO enrichment analysis was performed on proteins differentially expressed at q &lt; 0.05, with proteins divided into lower and higher expressed proteins. For every GO term, the corresponding GO group is listed, as well as whether the GO term is considered to be a ‘Best Per Parent’ term.
DOI: 10.6084/m9.figshare.20267359.v1
title: Additional file 5 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 5 Lists of significant GO enrichment analysis results for proteins differentially expressed in frontal cortical FTD-GRN vs NDC and temporal cortical FTD-MAPT vs NDC. GO enrichment analysis was performed on proteins differentially expressed at q &lt; 0.05, with proteins divided into lower and higher expressed proteins. For every GO term, the corresponding GO group is listed, as well as whether the GO term is considered to be a ‘Best Per Parent’ term.
DOI: 10.6084/m9.figshare.20267365
title: Additional file 7 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 7 Lists of SynGO enrichment analysis results for proteins differentially expressed in frontal cortical FTD-GRN vs NDC and temporal cortical FTD-MAPT vs NDC. SynGO enrichment analysis was performed on proteins differentially expressed at q &lt; 0.05, with proteins divided into lower and higher expressed proteins. For every SynGO term, the proteins within that term that were measured in the different FTD subtypes are given, as well the raw and multiple testing corrected p-value for the enrichment analysis.
DOI: 10.6084/m9.figshare.20267365.v1
title: Additional file 7 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 7 Lists of SynGO enrichment analysis results for proteins differentially expressed in frontal cortical FTD-GRN vs NDC and temporal cortical FTD-MAPT vs NDC. SynGO enrichment analysis was performed on proteins differentially expressed at q &lt; 0.05, with proteins divided into lower and higher expressed proteins. For every SynGO term, the proteins within that term that were measured in the different FTD subtypes are given, as well the raw and multiple testing corrected p-value for the enrichment analysis.
DOI: 10.6084/m9.figshare.20267368
title: Additional file 8 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 8 Overview of MitoCarta-based analysis for proteins differentially expressed in frontal cortical FTD-GRN vs NDC. MitoCarta-based analysis was performed on proteins differentially expressed at q &lt; 0.05. Results include MitoCarta protein annotations, results from the PANTHER overrepresentation analysis on the MitoCarta-annotated proteins, and an overview of those MitoCarta proteins involved in the respiratory chain complexes I-III
DOI: 10.6084/m9.figshare.20267368.v1
title: Additional file 8 of Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia

description: Additional file 8 Overview of MitoCarta-based analysis for proteins differentially expressed in frontal cortical FTD-GRN vs NDC. MitoCarta-based analysis was performed on proteins differentially expressed at q &lt; 0.05. Results include MitoCarta protein annotations, results from the PANTHER overrepresentation analysis on the MitoCarta-annotated proteins, and an overview of those MitoCarta proteins involved in the respiratory chain complexes I-III
DOI: 10.6084/m9.figshare.20267378.v1
title: Additional file 1 of Comparison of the prevalence of kidney disease by proteinuria and decreased estimated glomerular filtration rate determined using three creatinine-based equations among patients admitted on medical wards of Masaka Regional Referral Hospital in Uganda: a prospective study

description: Additional file 1. Prevalence of abnormal kidney function and 90-days outcomes among patients admitted on medical wards of Masaka Regional Referral Hospital in Uganda.
DOI: 10.6084/m9.figshare.20267378
title: Additional file 1 of Comparison of the prevalence of kidney disease by proteinuria and decreased estimated glomerular filtration rate determined using three creatinine-based equations among patients admitted on medical wards of Masaka Regional Referral Hospital in Uganda: a prospective study

description: Additional file 1. Prevalence of abnormal kidney function and 90-days outcomes among patients admitted on medical wards of Masaka Regional Referral Hospital in Uganda.
DOI: 10.6084/m9.figshare.20267383
title: Additional file 1 of Rivers as a potential dispersing agent of the invasive tree Acacia dealbata

description: Table S1. Geographic location of each sampled point (WGS 84 UTM zone 19S), with its hydraulic characterization, captured pods and samples, and other estimated variables. Figure S1. Summary of germination experiment. A, Firstly, to evaluate the probability of germination while drifting in the river's flow, we conduct ‘germination in water’ experiments. Using the immersion device shown in Fig. 2, we simulate transport by the river of both scarified and unscarified seeds. We assess the effect of immersion duration (15, 35, and 55 days). As a control treatment, we germinate seeds in water without any movement. B, Secondly, to assess germination post river transport (post deposition), we perform a ‘germination over substrate’ experiment with those unscarified seeds previously used in the ‘germination in water’ experiments with motion (Fig. 2), scarifying half of them. Again, we evaluate the effect of immersion duration in water in movement (15 days, 35 days, and 55 days). Some seeds rotted during the ‘germination in water,’ which was quantified; this decreased the number of samples for the ‘germination over a substrate.’ As control treatment, seeds that were previously not immersed in water were also tested. Figure S2. Schematic drawing of the device used for continuous immersion and motion of the seeds, in the ‘germination in water’ experiments. A) A small electrical motor with a gearbox and a propeller is attached to a wooden support. B) Each seed is placed in a pocket, which is suspended from a wooden frame that is attached to the propeller. C) The frame is placed atop a plastic container filled with water. The circular motion of the electrical motor generates a vertical up-and-down movement, maintaining the seeds in continuous motion. Figure S3. Relationship between the Reynolds number and A. dealbata’s seeds caught in the river flow (seed/min), at each sampling site. Linear regression is significant (R2 =0.363, p =0.008).
DOI: 10.6084/m9.figshare.20267383.v1
title: Additional file 1 of Rivers as a potential dispersing agent of the invasive tree Acacia dealbata

description: Table S1. Geographic location of each sampled point (WGS 84 UTM zone 19S), with its hydraulic characterization, captured pods and samples, and other estimated variables. Figure S1. Summary of germination experiment. A, Firstly, to evaluate the probability of germination while drifting in the river's flow, we conduct ‘germination in water’ experiments. Using the immersion device shown in Fig. 2, we simulate transport by the river of both scarified and unscarified seeds. We assess the effect of immersion duration (15, 35, and 55 days). As a control treatment, we germinate seeds in water without any movement. B, Secondly, to assess germination post river transport (post deposition), we perform a ‘germination over substrate’ experiment with those unscarified seeds previously used in the ‘germination in water’ experiments with motion (Fig. 2), scarifying half of them. Again, we evaluate the effect of immersion duration in water in movement (15 days, 35 days, and 55 days). Some seeds rotted during the ‘germination in water,’ which was quantified; this decreased the number of samples for the ‘germination over a substrate.’ As control treatment, seeds that were previously not immersed in water were also tested. Figure S2. Schematic drawing of the device used for continuous immersion and motion of the seeds, in the ‘germination in water’ experiments. A) A small electrical motor with a gearbox and a propeller is attached to a wooden support. B) Each seed is placed in a pocket, which is suspended from a wooden frame that is attached to the propeller. C) The frame is placed atop a plastic container filled with water. The circular motion of the electrical motor generates a vertical up-and-down movement, maintaining the seeds in continuous motion. Figure S3. Relationship between the Reynolds number and A. dealbata’s seeds caught in the river flow (seed/min), at each sampling site. Linear regression is significant (R2 =0.363, p =0.008).
DOI: 10.6084/m9.figshare.20267416
title: Additional file 2 of Phylogenies of the 16S rRNA gene and its hypervariable regions lack concordance with core genome phylogenies

description: Additional file 2. Excel spreadsheet including all supplementary tables, titles, and legends.
DOI: 10.6084/m9.figshare.20267416.v1
title: Additional file 2 of Phylogenies of the 16S rRNA gene and its hypervariable regions lack concordance with core genome phylogenies

description: Additional file 2. Excel spreadsheet including all supplementary tables, titles, and legends.
DOI: 10.6084/m9.figshare.20267443
title: Additional file 1 of Characterization of a novel thermophilic metagenomic GH5 endoglucanase heterologously expressed in Escherichia coli and Saccharomyces cerevisiae

description: Additional file 1. Complete sequence of the gene encoding Cel776 with adapter sequences for subcloning in the Gateway system.
DOI: 10.6084/m9.figshare.20267443.v1
title: Additional file 1 of Characterization of a novel thermophilic metagenomic GH5 endoglucanase heterologously expressed in Escherichia coli and Saccharomyces cerevisiae

description: Additional file 1. Complete sequence of the gene encoding Cel776 with adapter sequences for subcloning in the Gateway system.
DOI: 10.5281/zenodo.6809672
title: Intelligent Tutoring System for Code Maintainability - Supplementary material

description: Data from a field study concerning the empirical evaluation of an intelligent tutoring system specialized for code maintainability. The paper will be referenced once published.
description: This research was supported by the Science Fund of the Republic of Serbia, Grant No 6521051, AI-Clean CaDET.
DOI: 10.5281/zenodo.6809671
title: Intelligent Tutoring System for Code Maintainability - Supplementary material

description: Data from a field study concerning the empirical evaluation of an intelligent tutoring system specialized for code maintainability. The paper will be referenced once published.
description: This research was supported by the Science Fund of the Republic of Serbia, Grant No 6521051, AI-Clean CaDET.
DOI: 10.5281/zenodo.6809639
title: Tensile response of low clinker UHPFRC subjected to fully restrained shrinkage

description: This dataset is from an experimental campaign on 6 free and 6 restrained TSTM (Temperature Stress Testing Machine) specimen made of UHPFRC (Ultra High Performance Fiber Reinforced Concrete), subjected to partial and fully restrained conditions, under quasi-isothermal conditions at 20°C, performed by Mohamed Hafiz in the framework of his doctoral thesis. The development of autogenous shrinkage and corresponding eigenstresses under various degrees of restraint were studied for two types of mixes: Mix I with type I cement and silica fume and Mix II with silica fume and 50% mass replacement of type I cement with limestone filler. Amir Hajiesmaieli developed Mix II.
DOI: 10.5281/zenodo.6809638
title: Tensile response of low clinker UHPFRC subjected to fully restrained shrinkage

description: This dataset is from an experimental campaign on 6 free and 6 restrained TSTM (Temperature Stress Testing Machine) specimen made of UHPFRC (Ultra High Performance Fiber Reinforced Concrete), subjected to partial and fully restrained conditions, under quasi-isothermal conditions at 20°C, performed by Mohamed Hafiz in the framework of his doctoral thesis. The development of autogenous shrinkage and corresponding eigenstresses under various degrees of restraint were studied for two types of mixes: Mix I with type I cement and silica fume and Mix II with silica fume and 50% mass replacement of type I cement with limestone filler. Amir Hajiesmaieli developed Mix II.
DOI: 10.5281/zenodo.6224978
title: Adjustable Block Analysis: Actor-based Creation of Block Summaries for Scaling Formal Verification

description: Software quality assurance becomes more and more popular in modern software development. Fixing bugs early, reduces the cost and increases the quality of the product. Since a great portion of time is needed for debugging, assisting techniques are integrated. Many techniques use formal verification as a basis. Although formal verification is applied with great success to many software development pipelines, the scalability is still a big challenge. In this work, we introduce the concept of the distributed CPAs (configurable program analyses). The core idea is to partition the control flow automaton (CFA) of a given input program in coherent blocks with one entry and one exit node. Workers analyze every block parallely and broadcast new information to every other worker. If a block contains an error location, the block is analyzed backwards from the error location. Whenever the analysis reaches the top of the block, we ask whether other blocks can prove the error location (un)reachable. For this, we can reuse the results of previous verification runs on other blocks. Our approach is easily extensible to support any existing configurable program analysis and additionally allows an easy integration of other concepts, e.g., fault localization. This work shows and explains the implementation of a framework for distributed CPAs in CPAchecker. Furthermore, we perform a thorough evaluation of the approach, showing that our implementation is sound and matches the results of the existing predicate analysis. However, the great amount of transferred data between workers slows down the verification process causing many out-of-memory errors and timeouts. Nonetheless, the evaluation reveals the current bottle-necks and points us to potentially useful and effective improvements. Thesis: https://www.sosy-lab.org/research/msc/2022.Kettl.Adjustable_Block_Analysis.pdf
DOI: 10.5281/zenodo.6224977
title: Adjustable Block Analysis: Actor-based Creation of Block Summaries for Scaling Formal Verification

description: Software quality assurance becomes more and more popular in modern software development. Fixing bugs early, reduces the cost and increases the quality of the product. Since a great portion of time is needed for debugging, assisting techniques are integrated. Many techniques use formal verification as a basis. Although formal verification is applied with great success to many software development pipelines, the scalability is still a big challenge. In this work, we introduce the concept of the distributed CPAs (configurable program analyses). The core idea is to partition the control flow automaton (CFA) of a given input program in coherent blocks with one entry and one exit node. Workers analyze every block parallely and broadcast new information to every other worker. If a block contains an error location, the block is analyzed backwards from the error location. Whenever the analysis reaches the top of the block, we ask whether other blocks can prove the error location (un)reachable. For this, we can reuse the results of previous verification runs on other blocks. Our approach is easily extensible to support any existing configurable program analysis and additionally allows an easy integration of other concepts, e.g., fault localization. This work shows and explains the implementation of a framework for distributed CPAs in CPAchecker. Furthermore, we perform a thorough evaluation of the approach, showing that our implementation is sound and matches the results of the existing predicate analysis. However, the great amount of transferred data between workers slows down the verification process causing many out-of-memory errors and timeouts. Nonetheless, the evaluation reveals the current bottle-necks and points us to potentially useful and effective improvements. Thesis: https://www.sosy-lab.org/research/msc/2022.Kettl.Adjustable_Block_Analysis.pdf
DOI: 10.6084/m9.figshare.20267270
title: Additional file 13 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 13: Table S1. Detailed characteristics of Klebsiella pneumoniae isolates.
DOI: 10.6084/m9.figshare.20267270.v1
title: Additional file 13 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 13: Table S1. Detailed characteristics of Klebsiella pneumoniae isolates.
DOI: 10.6084/m9.figshare.20267529
title: Additional file 14 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 14: Table S2. Features of in silico-predicted plasmids.
DOI: 10.6084/m9.figshare.20267532
title: Additional file 15 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 15: Table S3. Characteristics of plasmids predicted to contain ESBL or carbapenemase genes.
DOI: 10.6084/m9.figshare.20267532.v1
title: Additional file 15 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 15: Table S3. Characteristics of plasmids predicted to contain ESBL or carbapenemase genes.
DOI: 10.6084/m9.figshare.20267535
title: Additional file 16 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 16: Table S4. Characteristics of NCBI bloodstream isolates.
DOI: 10.6084/m9.figshare.20267535.v1
title: Additional file 16 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 16: Table S4. Characteristics of NCBI bloodstream isolates.
DOI: 10.6084/m9.figshare.20267538
title: Additional file 17 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 17: Table S5. Sequenced isolates from this study.
DOI: 10.6084/m9.figshare.20267538.v1
title: Additional file 17 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 17: Table S5. Sequenced isolates from this study.
DOI: 10.6084/m9.figshare.20267541
title: Additional file 18 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 18: Table S6. Complete genomes from this study.
DOI: 10.6084/m9.figshare.20267541.v1
title: Additional file 18 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 18: Table S6. Complete genomes from this study.
DOI: 10.6084/m9.figshare.20267544
title: Additional file 19 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 19: Table S7. Reference genomes.
DOI: 10.6084/m9.figshare.20267544.v1
title: Additional file 19 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 19: Table S7. Reference genomes.
DOI: 10.6084/m9.figshare.20267550
title: Additional file 20 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 20: Table S8. Number of mice dosing and mortality.
DOI: 10.6084/m9.figshare.20267550.v1
title: Additional file 20 of Genomic surveillance for multidrug-resistant or hypervirulent Klebsiella pneumoniae among United States bloodstream isolates

description: Additional file 20: Table S8. Number of mice dosing and mortality.
DOI: 10.6084/m9.figshare.19794292
title: Phase stability of V- based multi-principal element alloys

description: The success of fusion power requires alloys with good mechanical properties and the ability to withstand extreme thermal and irradiation conditions without prohibitive levels of activation or structural degradation. Body-centred cubic multi-principal component alloys, V–Cr–Mn and Ti–V–Cr–Mn have shown promising high-temperature stability at 1200∘C. For the alloys to be suitable for use in nuclear fusion reactors, they must be stable across a wide range of temperatures relevant to fusion applications. Here, we assess alloy microstructural stability in these systems following long-term heat treatments at various temperatures. Encouragingly, most of the alloys showed no significant change in microstructure across all temperatures. This contrasts with many other multi-principal component alloys, which develop complex microstructures after exposure to intermediate temperatures.