cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22920817
title: Whipple’s disease-associated infective endocarditis: a systematic review

description: Whipple’s disease is an uncommon chronic systemic disease caused by <i>Tropheryma whippelii</i>. The most characteristic findings of late Whipple’s disease include diarrhoea, abdominal pain, weight loss, and arthralgias, however, other clinical findings can occur, including lymphadenopathy, fever, neurologic manifestations, myocarditis and endocarditis. The aim of the present study was to systematically review all cases of Whipple’s disease-associated infective endocarditis (IE) in the literature. A systematic review of PubMed, Scopus, and Cochrane Library (all published studies up to 28 May 2022) for studies providing data on epidemiology, clinical characteristics as well as data on treatment and outcomes of Whipple’s disease-associated IE was performed. A total of 72 studies, containing data for 127 patients, were included. A prosthetic valve was present in 8% of patients. The aortic valve was the most commonly involved intracardiac site followed by the mitral valve. Heart failure, embolic phenomena, and fever were the most common clinical presentations, however, fever occurred in less than 30% of patients. Sepsis was rarely noted. The diagnosis was most commonly performed through pathology through positive PCR or histology in cardiac valves in 88.2% of patients. Trimethoprim with sulfamethoxazole were the most commonly used antimicrobials followed by cephalosporins and tetracyclines. Surgery was performed in 84.3% of patients. Mortality was 9.4%. A multivariate logistic regression analysis model identified presentation with sepsis or development of a paravalvular abscess to be independently associated with increased mortality, while treatment with the combination of trimethoprim with sulfamethoxazole was independently associated with reduced mortality.
DOI: 10.6084/m9.figshare.22920817.v1
title: Whipple’s disease-associated infective endocarditis: a systematic review

description: Whipple’s disease is an uncommon chronic systemic disease caused by <i>Tropheryma whippelii</i>. The most characteristic findings of late Whipple’s disease include diarrhoea, abdominal pain, weight loss, and arthralgias, however, other clinical findings can occur, including lymphadenopathy, fever, neurologic manifestations, myocarditis and endocarditis. The aim of the present study was to systematically review all cases of Whipple’s disease-associated infective endocarditis (IE) in the literature. A systematic review of PubMed, Scopus, and Cochrane Library (all published studies up to 28 May 2022) for studies providing data on epidemiology, clinical characteristics as well as data on treatment and outcomes of Whipple’s disease-associated IE was performed. A total of 72 studies, containing data for 127 patients, were included. A prosthetic valve was present in 8% of patients. The aortic valve was the most commonly involved intracardiac site followed by the mitral valve. Heart failure, embolic phenomena, and fever were the most common clinical presentations, however, fever occurred in less than 30% of patients. Sepsis was rarely noted. The diagnosis was most commonly performed through pathology through positive PCR or histology in cardiac valves in 88.2% of patients. Trimethoprim with sulfamethoxazole were the most commonly used antimicrobials followed by cephalosporins and tetracyclines. Surgery was performed in 84.3% of patients. Mortality was 9.4%. A multivariate logistic regression analysis model identified presentation with sepsis or development of a paravalvular abscess to be independently associated with increased mortality, while treatment with the combination of trimethoprim with sulfamethoxazole was independently associated with reduced mortality.
DOI: 10.6084/m9.figshare.22669909.v1
title: Ultralong 100 ns Spin Relaxation Time in Graphite at Room Temperature

description: Raw data for MS entitled "Ultralong 100 ns Spin Relaxation Time in Graphite at Room Temperature" in Origin files.
DOI: 10.6084/m9.figshare.22669909
title: Ultralong 100 ns Spin Relaxation Time in Graphite at Room Temperature

description: Raw data for MS entitled "Ultralong 100 ns Spin Relaxation Time in Graphite at Room Temperature" in Origin files.
DOI: 10.6084/m9.figshare.22661989.v1
title: Rubisco deactivation and chloroplast electron transport rates co-limit photosynthesis above optimal leaf temperature in terrestrial plants

description: Please refer to GitHub (https://doi.org/10.5281/zenodo.7683559) for further data and analysis information
DOI: 10.6084/m9.figshare.22661989
title: Rubisco deactivation and chloroplast electron transport rates co-limit photosynthesis above optimal leaf temperature in terrestrial plants

description: Please refer to GitHub (https://doi.org/10.5281/zenodo.7683559) for further data and analysis information
DOI: 10.21227/m6g7-hz55
title: Poly-crystalline Silicon Panels Defect Segmentation Dataset

description: Practical dataset PSP-DS for polysilicon panel defect segmentation comes from a real industrial setting and contains 356 high-resolution images of 1 non-defect type and 7 defect categories. We precisely annotated 149 defect samples at the pixel level. PSPDS can be used to evaluate various methods such as unsupervised anomaly detection, few-shot segmentation, anomaly generation, and one-class classification.
DOI: 10.6084/m9.figshare.22920863
title: ALL PROJECTS DATA.xlsx

description: Add data included in the manuscript: renal physiology, morphometry, SGLT2 mRNA and protein expression in renal membranes
DOI: 10.6084/m9.figshare.22920863.v1
title: ALL PROJECTS DATA.xlsx

description: Add data included in the manuscript: renal physiology, morphometry, SGLT2 mRNA and protein expression in renal membranes
DOI: 10.6084/m9.figshare.22740974
title: Conspecific and heterospecific plant-soil feedback data and root trait measurements of 18 annual and perennial plant species

description: These two data sets contain the raw data of an experimental project in which we aimed to unravel the drivers of plant-soil feedback interactions among annual and perennial grassland plant species. In our two-phase greenhouse experiment, we first conditioned field soil with 18 different annual and perennial plant species. In this conditioning phase, plants grew for 11 weeks until they were harvested and were regularly watered. The biomass data of that conditioning phase can be found in the first tab (Conditioning phase) of 'Wilschut_etal_biomass.xlsx'. For each conditioning phase plant species, there were 20 pots planted with single seedlings, with 4 pots in each experimental block. At the end of the first phase, soils from 3 out of 4 pots were combined into one soil bag, serving as inoculum for the feedback phase. This was done as some of the plants died during the conditioning phase. Shoot and root biomass of conditioning plants of the selected pots were separately measured. In the second tab (Feedback phase) of 'Wilschut_etal_biomass.xlsx' root and shoot biomass data of all 18 plant species in all different soils from the conditioning phase can be found. In this phase, plants grew for 8 weeks, were regularly watered and received 60 ml of a 1% Universol<sup>®</sup> Blue fertilizer solution at the start of the growth period. Initial leaf numbers of the seedlings are also reported. In 'Wilschut_etal_roottraits.xlsx', structural root trait data of all 18 plant species are listed. These data were measured in a separate greenhouse experiment, in which we seperately grew single plant individuals (N = 3) of each species in a mixture of sand-vermiculite. Each pot in total received 160 ml of a 1% Universol<sup>®</sup> Blue fertilizer solution during the 7-week growth period. After that, we washed and scanned root systems and obtained root length and average root diameter measurements using WhinRHIZO software (Pro version 2017a; Regent Instrumentals Canada Inc.). Root and shoots were weighed to also obtain specific root length and relative root weight measurements.
DOI: 10.6084/m9.figshare.22740974.v1
title: Conspecific and heterospecific plant-soil feedback data and root trait measurements of 18 annual and perennial plant species

description: These two data sets contain the raw data of an experimental project in which we aimed to unravel the drivers of plant-soil feedback interactions among annual and perennial grassland plant species. In our two-phase greenhouse experiment, we first conditioned field soil with 18 different annual and perennial plant species. In this conditioning phase, plants grew for 11 weeks until they were harvested and were regularly watered. The biomass data of that conditioning phase can be found in the first tab (Conditioning phase) of 'Wilschut_etal_biomass.xlsx'. For each conditioning phase plant species, there were 20 pots planted with single seedlings, with 4 pots in each experimental block. At the end of the first phase, soils from 3 out of 4 pots were combined into one soil bag, serving as inoculum for the feedback phase. This was done as some of the plants died during the conditioning phase. Shoot and root biomass of conditioning plants of the selected pots were separately measured. In the second tab (Feedback phase) of 'Wilschut_etal_biomass.xlsx' root and shoot biomass data of all 18 plant species in all different soils from the conditioning phase can be found. In this phase, plants grew for 8 weeks, were regularly watered and received 60 ml of a 1% Universol<sup>®</sup> Blue fertilizer solution at the start of the growth period. Initial leaf numbers of the seedlings are also reported. In 'Wilschut_etal_roottraits.xlsx', structural root trait data of all 18 plant species are listed. These data were measured in a separate greenhouse experiment, in which we seperately grew single plant individuals (N = 3) of each species in a mixture of sand-vermiculite. Each pot in total received 160 ml of a 1% Universol<sup>®</sup> Blue fertilizer solution during the 7-week growth period. After that, we washed and scanned root systems and obtained root length and average root diameter measurements using WhinRHIZO software (Pro version 2017a; Regent Instrumentals Canada Inc.). Root and shoots were weighed to also obtain specific root length and relative root weight measurements.
DOI: 10.6084/m9.figshare.22921229
title: S3-LP_annots_and_locations_recip.xlsx

description: <strong>Table S3 | </strong>Annotations and genomic locations of <em>L. paranigra </em>transcripts (reciprocal best BLAST hits only). Column headers are defined as follows; <em>transcript: </em>transcript identifier, <em>scaffold</em>: scaffold to which the transcript maps, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID, <em>Gene_Ontology_IDs</em>: GO IDs associated with Uniprot_ID, <em>pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score.
DOI: 10.6084/m9.figshare.22921229.v1
title: S3-LP_annots_and_locations_recip.xlsx

description: <strong>Table S3 | </strong>Annotations and genomic locations of <em>L. paranigra </em>transcripts (reciprocal best BLAST hits only). Column headers are defined as follows; <em>transcript: </em>transcript identifier, <em>scaffold</em>: scaffold to which the transcript maps, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID, <em>Gene_Ontology_IDs</em>: GO IDs associated with Uniprot_ID, <em>pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score.
DOI: 10.6084/m9.figshare.22921232
title: S6-LK_annots_on_QTL.xlsx

description: <strong>Table S6 | </strong>Annotations, genomic locations, and QTL associations of <em>L. kohalensis </em>transcripts expressed on QTL scaffolds. Column headers are defined as follows; <em>scaffold</em>: scaffold identity, <em>transcript: </em>transcript identifier, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID,<em> pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score, <em>size</em>: size (in bp) of scaffold, <em>LG</em>: linkage group on which the scaffold falls, <em>start_position</em>: genomic location of start of scaffold, <em>end_position</em>: genomic location of end of scaffold, <em>id_source</em>: study in which the scaffold has been identified, <em>peak_location_reanalysis</em>: location (in cM) of given QTL peak in present study, <em>scaffold_type_reanalysis</em>: indicator of whether the scaffold is the peak scaffold or merely falls within the CI in present study, <em>peak_location_finemap</em>: location (in cM) of given QTL in Xu & Shaw 2019, <em>scaffold_type_reanalysis</em>: indicator of whether the scaffold is the peak scaffold or merely falls within the CI in Xu & Shaw 2019.
DOI: 10.6084/m9.figshare.22921232.v1
title: S6-LK_annots_on_QTL.xlsx

description: <strong>Table S6 | </strong>Annotations, genomic locations, and QTL associations of <em>L. kohalensis </em>transcripts expressed on QTL scaffolds. Column headers are defined as follows; <em>scaffold</em>: scaffold identity, <em>transcript: </em>transcript identifier, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID,<em> pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score, <em>size</em>: size (in bp) of scaffold, <em>LG</em>: linkage group on which the scaffold falls, <em>start_position</em>: genomic location of start of scaffold, <em>end_position</em>: genomic location of end of scaffold, <em>id_source</em>: study in which the scaffold has been identified, <em>peak_location_reanalysis</em>: location (in cM) of given QTL peak in present study, <em>scaffold_type_reanalysis</em>: indicator of whether the scaffold is the peak scaffold or merely falls within the CI in present study, <em>peak_location_finemap</em>: location (in cM) of given QTL in Xu & Shaw 2019, <em>scaffold_type_reanalysis</em>: indicator of whether the scaffold is the peak scaffold or merely falls within the CI in Xu & Shaw 2019.
DOI: 10.6084/m9.figshare.22921214
title: S5-LP_annots_and_locations_full.xlsx

description: <strong>Table S5 | </strong>Annotations and genomic locations of <em>L. paranigra </em>transcripts (all BLAST hits). Column headers are defined as follows; <em>transcript: </em>transcript identifier, <em>scaffold</em>: scaffold to which the transcript maps, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID, <em>Gene_Ontology_IDs</em>: GO IDs associated with Uniprot_ID, <em>pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score.
DOI: 10.6084/m9.figshare.22921214.v1
title: S5-LP_annots_and_locations_full.xlsx

description: <strong>Table S5 | </strong>Annotations and genomic locations of <em>L. paranigra </em>transcripts (all BLAST hits). Column headers are defined as follows; <em>transcript: </em>transcript identifier, <em>scaffold</em>: scaffold to which the transcript maps, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID, <em>Gene_Ontology_IDs</em>: GO IDs associated with Uniprot_ID, <em>pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score.
DOI: 10.5281/zenodo.7947575
title: viral contig sequences in soybean rhizosphere under cadmium stress

description: The dataset contains the viral contig sequences in soybean rhizosphere under cadmium stress.
DOI: 10.5281/zenodo.7947574
title: viral contig sequences in soybean rhizosphere under cadmium stress

description: The dataset contains the viral contig sequences in soybean rhizosphere under cadmium stress.
DOI: 10.15128/r16d56zw68r
title: Tunable Feshbach resonances in collisions of ultracold molecules in 2Σ states with alkali-metal atoms [dataset]

description: We consider the magnetically tunable Feshbach resonances that may exist in ultracold mixtures of molecules in 2Σ states and alkali-metal atoms. We focus on Rb+CaF as a prototype system. There are likely to be Feshbach resonances analogous to those between pairs of alkali-metal atoms. We investigate the patterns of near-threshold states and the resonances that they cause, using coupled-channel calculations of the bound states and low-energy scattering on model interaction potentials. We explore the dependence of the properties on as-yet-unknown potential parameters. There is a high probability that resonances will exist at magnetic fields below 1000 G, and that these will be broad enough to control collisions and form triatomic molecules by magnetoassociation. We consider the effect of CaF rotation and potential anisotropy, and conclude that they may produce additional resonances but should not affect the existence of rotation-free resonances.
DOI: 10.6084/m9.figshare.22921217
title: S2-LK_annots_and_locations_recip.xlsx

description: <strong>Table S2 | </strong>Annotations and genomic locations of <em>L. kohalensis </em>transcripts (reciprocal best BLAST hits only). Column headers are defined as follows; <em>transcript: </em>transcript identifier, <em>scaffold</em>: scaffold to which the transcript maps, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID, <em>Gene_Ontology_IDs</em>: GO IDs associated with Uniprot_ID, <em>pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score.
DOI: 10.6084/m9.figshare.22921217.v1
title: S2-LK_annots_and_locations_recip.xlsx

description: <strong>Table S2 | </strong>Annotations and genomic locations of <em>L. kohalensis </em>transcripts (reciprocal best BLAST hits only). Column headers are defined as follows; <em>transcript: </em>transcript identifier, <em>scaffold</em>: scaffold to which the transcript maps, <em>start: </em>genomic location of start of transcript, <em>stop</em>: genomic location of end of transcript, <em>direction</em>: indicator of which direction the transcript is transcribed in, <em>Entry_Name</em>: Uniprot ID assigned to transcript, <em>Protein_Name</em>: Protein name associated with Uniprot_ID, <em>Gene_Name</em>: Gene names associated with Uniprot_ID, <em>Gene_Ontology_IDs</em>: GO IDs associated with Uniprot_ID, <em>pident</em>: percentage of identical matches, <em>length: </em>length (in bp) of sequence overlap, <em>mismatch</em>: number of mismatches, <em>gapopen</em>: number of gap openings, <em>qstart</em>: start of alignment in query, <em>qend</em>: end of alignment in query, <em>sstart:</em> start of alignment in subject, <em>send</em>: end of alignment in subject, <em>evalue</em>: expect value, <em>bitscore</em>: bit score.
DOI: 10.6084/m9.figshare.22921220
title: S1-QTL_Consolidation.xlsx

description: <strong>Table S1 | </strong>Summary of scaffolds associated with <em>L. kohalensis </em>x <em>L. paranigra </em>pulse rate QTL across studies. Column headers are defined as follows; <em>scaffold</em>: scaffold identity, <em>size</em>: size (in bp) of scaffold, <em>LG</em>: linkage group on which the scaffold falls, <em>start_position</em>: genomic location of start of scaffold, <em>end_position</em>: genomic location of end of scaffold, <em>id_source</em>: study in which the scaffold has been identified, <em>peak_location_reanalysis</em>: location (in cM) of given QTL peak in present study, <em>scaffold_type_reanalysis</em>: indicator of whether the scaffold is the peak scaffold or merely falls within the CI in present study, <em>peak_location_finemap</em>: location (in cM) of given QTL in Xu & Shaw 2019, <em>scaffold_type_reanalysis</em>: indicator of whether the scaffold is the peak scaffold or merely falls within the CI in Xu & Shaw 2019.