cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11994576
title: Mendelian randomisation study of BMI and AD

description: Results of association testing for MR genetic instruments<br>
DOI: 10.6084/m9.figshare.11994543.v1
title: Supplementary Material for: Molecular Cytogenetic Analysis and Meiotic Pairing Behavior of Progenies Originating from a Hexaploid Triticale (×Triticosecale, Wittmack) and Bread Wheat (Triticum aestivum, L.) Cross

description: The chromosomal constitution of 9 dwarf (D) and 8 semidwarf (SD) lines derived by crossing hexaploid Triticale line NA-75 (AABBRR, 2n = 6x = 42) with Triticum aestivum (AABBDD, 2n = 6x = 42) cv. C hinese Spring was investigated using molecular cytogenetic techniques: fluorescence in situ hybridization and genomic in situ hybridization. A wheat-rye translocation (T4DS.7RL), 8 substitution lines, and a ditelosomic addition line (7RSdt) were identified. In the substitution lines, 1, 2, or 4 pairs of wheat chromosomes, belonging to the A, B, or D genome, were replaced by rye chromosomes. Substitutions between chromosomes belonging to different wheat genomes [5B(5A), 1D(1B)] also occurred. The lines were genetically stable, each carrying 42 chromosomes, except the wheat-rye ditelosomic addition line, which carried 21 pairs of wheat chromosomes and 1 pair of rye telocentric chromosomes (7RS). The chromosome pairing behavior of the lines was studied during metaphase I of meiosis. The chromosome pairing level and the number of ring bivalents were different for each line. Besides rod bivalents, univalent and multivalent associations (tri- and quadrivalents) were also detected. The main goal of the experiment was to develop genetically stable wheat/Triticale recombinant lines carrying chromosomes/chromatin fragments originating from the R genome of Triticale line NA-75. Introgression of rye genes into hexaploid wheat can broaden its genetic diversity, and the newly developed lines can be used in wheat breeding programs.
DOI: 10.6084/m9.figshare.11994576.v1
title: Mendelian randomisation study of BMI and AD

description: Results of association testing for MR genetic instruments<br>
DOI: 10.6084/m9.figshare.11994492
title: Supplementary Material for: Untitled Expression Profile of Chicken Sex Chromosome Gene BTF3 is Linked to Gonadal PhenotypeItem

description: In birds, the female is heterogametic (ZW) and the male homogametic (ZZ). The small W chromosome comprises only 28 protein coding genes (homologues to Z chromosome counterparts) and a number of repeat regions. Here, we report our analysis of one of these genes, BTF3 (basic transcription factor 3), which exhibits differential expression during gonadogenesis. We measured RNA levels of both Z and W homologues and BTF3 protein levels in male and female gonads during development of the chicken embryo. In addition, <br> BTF3 RNA and protein levels were compared in female gonads (ovary) and in female gonads following treatment to induce sex reversal (testis). Combined BTF3 RNA levels were higher in female gonads than male gonads, while BTF3-Z was expressed at similar levels in males and females. Surprisingly, BTF3 protein levels were higher in male gonads than female gonads at embryonic day 6 (E6), suggesting translational rather than transcriptional regulation. BTF3 protein was expressed in both somatic and germ cells and was restricted to the medulla of the developing ovary in females and the sex cords of the developing testis in males. In addition, in gonadal sex-reversed females, RNA and protein levels of BTF3 were similar to those normally found in male gonads, suggesting that BTF3 expression correlated with the gonadal phenotype. <br><br>
DOI: 10.6084/m9.figshare.11994498
title: Vicarious pain dataset

description: This dataset includes fMRI data from 238 healthy human participants collected during a block design fMRI task during which physical and affective vicarious pain pictures as well as corresponding non-painful control pictures were presented. <br>The physical and vicarious pain GLM dataset was generated by SPM first level analysis, and the physical and vicarious pain clean dataset was generated from the preprocessed BOLD signal by regressing out motion parameters, high-pass filtering and subsequent averaging across condition-specific blocks (shifted 6s to account for HRF delay).The data is provided in fmri_data object format from the CANlab Core Tools repository for neuroimaging data analysis. See https://canlab.github.io/<br>
DOI: 10.6084/m9.figshare.11994492.v1
title: Supplementary Material for: Untitled Expression Profile of Chicken Sex Chromosome Gene BTF3 is Linked to Gonadal PhenotypeItem

description: In birds, the female is heterogametic (ZW) and the male homogametic (ZZ). The small W chromosome comprises only 28 protein coding genes (homologues to Z chromosome counterparts) and a number of repeat regions. Here, we report our analysis of one of these genes, BTF3 (basic transcription factor 3), which exhibits differential expression during gonadogenesis. We measured RNA levels of both Z and W homologues and BTF3 protein levels in male and female gonads during development of the chicken embryo. In addition, <br> BTF3 RNA and protein levels were compared in female gonads (ovary) and in female gonads following treatment to induce sex reversal (testis). Combined BTF3 RNA levels were higher in female gonads than male gonads, while BTF3-Z was expressed at similar levels in males and females. Surprisingly, BTF3 protein levels were higher in male gonads than female gonads at embryonic day 6 (E6), suggesting translational rather than transcriptional regulation. BTF3 protein was expressed in both somatic and germ cells and was restricted to the medulla of the developing ovary in females and the sex cords of the developing testis in males. In addition, in gonadal sex-reversed females, RNA and protein levels of BTF3 were similar to those normally found in male gonads, suggesting that BTF3 expression correlated with the gonadal phenotype. <br><br>
DOI: 10.6084/m9.figshare.11994498.v1
title: Vicarious pain dataset

description: This dataset includes fMRI data from 238 healthy human participants collected during a block design fMRI task during which physical and affective vicarious pain pictures as well as corresponding non-painful control pictures were presented. <br>The physical and vicarious pain GLM dataset was generated by SPM first level analysis, and the physical and vicarious pain clean dataset was generated from the preprocessed BOLD signal by regressing out motion parameters, high-pass filtering and subsequent averaging across condition-specific blocks (shifted 6s to account for HRF delay).The data is provided in fmri_data object format from the CANlab Core Tools repository for neuroimaging data analysis. See https://canlab.github.io/<br>
DOI: 10.6084/m9.figshare.11994258
title: Core proteome files

description: Each fasta file represents a protein from the core proteome of Paenibacillus species.These ortholog groups were generated through the Get_homologues package (OrthoMCL option).
DOI: 10.6084/m9.figshare.11994168
title: Dataset from The role of mural mechanics on cephalopod palaeoecology

description: Datasets usually provide raw data for analysis. This raw data often comes in spreadsheet form, but can be any collection of data, on which analysis can be performed.
DOI: 10.6084/m9.figshare.11994258.v1
title: Core proteome files

description: Each fasta file represents a protein from the core proteome of Paenibacillus species.These ortholog groups were generated through the Get_homologues package (OrthoMCL option).
DOI: 10.6084/m9.figshare.11994123
title: Commnunity code from Positive correlations in species functional contributions drive the response of multifunctionality to biodiversity loss

description: Code to generate the communities, aggregate the response variables of interest, and generate the figures
DOI: 10.6084/m9.figshare.11994126
title: Biodiversity loss simulation code from Positive correlations in species functional contributions drive the response of multifunctionality to biodiversity loss

description: Code to simulate biodiversity loss scenarios, and generate output for analysis
DOI: 10.6084/m9.figshare.11994168.v1
title: Dataset from The role of mural mechanics on cephalopod palaeoecology

description: Datasets usually provide raw data for analysis. This raw data often comes in spreadsheet form, but can be any collection of data, on which analysis can be performed.
DOI: 10.6084/m9.figshare.11994117
title: Statistical analysis from Positive correlations in species functional contributions drive the response of multifunctionality to biodiversity loss

description: Statistical results of the effect of extinction order and correlation structure on the change in multifunctionality per species added
DOI: 10.6084/m9.figshare.11994123.v1
title: Commnunity code from Positive correlations in species functional contributions drive the response of multifunctionality to biodiversity loss

description: Code to generate the communities, aggregate the response variables of interest, and generate the figures
DOI: 10.6084/m9.figshare.11994126.v1
title: Biodiversity loss simulation code from Positive correlations in species functional contributions drive the response of multifunctionality to biodiversity loss

description: Code to simulate biodiversity loss scenarios, and generate output for analysis
DOI: 10.6084/m9.figshare.11993961
title: Chelae closing force dataset for freshwater crayfish and crabs

description: It is essential to incorporate mechanisms of biotic resistance into predictions of ecological impact conferred by invasive species. Trophically and functionally analogous native species have high potential to confer biotic resistance or to be susceptible to competitive exclusion by the invading species. In species with dominance hierarchies and high aggression the role of weapons, such as chelae, is emphasised and selected for. Differences in traits such as crushing capacity can indicate prey handling capabilities, while correlations between closing force and morphology can be used to understand the role of signalling in agonistic contests. Closing force strength can be used to infer the outcomes of both direct (predation) and indirect (competition) trophic interactions. Southern Africa has been invaded by two freshwater crayfish species (<i>Cherax quadricarinatus</i> and <i>Procambarus clarkii</i>). Biotic resistance of freshwater crabs towards crayfish invasions varies between geographic location and co-evolutionary history, thus comparing invasion histories without incorporating geographic context can produce unequivocal conclusions. We compared the closing force and chelae morphology of both crayfish species with a native trophically analogous freshwater crab, <i>Potamonautes perlatus</i>. Closing force increased significantly with mass for all species. There was significant interaction between sex and species on closing force. <i>Potamonautes perlatus</i> females showed significantly stronger maximum chela closing force than male <i>P. perlatus, </i>both sexes of <i>P. clarkii </i>and female <i>C. quadricarinatus</i>. Contrastingly, male <i>C. quadricarinatus</i> had significantly higher closing forces than both sexes of <i>P. clarkii</i> and female <i>C. quadricarinatus</i>, however, there was no difference between female <i>P. perlatus</i>. Native <i>P. perlatus</i> has the capacity to hold a competitive mechanical advantage over both invaders, but this varies with sex. Chelae length was not a significant predictor for closing strength in any of the species, which may be related to dishonest signalling in decapod species. This makes it imperative to assess whether factors such as closing force actually translate to resource holding potential in a contest scenario. We thus provide evidence that African freshwater crabs may exhibit biotic resistance towards invasion and the first measurements for <i>C. quadricarinatus</i> closing force strength.
DOI: 10.6084/m9.figshare.11993961.v1
title: Chelae closing force dataset for freshwater crayfish and crabs

description: It is essential to incorporate mechanisms of biotic resistance into predictions of ecological impact conferred by invasive species. Trophically and functionally analogous native species have high potential to confer biotic resistance or to be susceptible to competitive exclusion by the invading species. In species with dominance hierarchies and high aggression the role of weapons, such as chelae, is emphasised and selected for. Differences in traits such as crushing capacity can indicate prey handling capabilities, while correlations between closing force and morphology can be used to understand the role of signalling in agonistic contests. Closing force strength can be used to infer the outcomes of both direct (predation) and indirect (competition) trophic interactions. Southern Africa has been invaded by two freshwater crayfish species (<i>Cherax quadricarinatus</i> and <i>Procambarus clarkii</i>). Biotic resistance of freshwater crabs towards crayfish invasions varies between geographic location and co-evolutionary history, thus comparing invasion histories without incorporating geographic context can produce unequivocal conclusions. We compared the closing force and chelae morphology of both crayfish species with a native trophically analogous freshwater crab, <i>Potamonautes perlatus</i>. Closing force increased significantly with mass for all species. There was significant interaction between sex and species on closing force. <i>Potamonautes perlatus</i> females showed significantly stronger maximum chela closing force than male <i>P. perlatus, </i>both sexes of <i>P. clarkii </i>and female <i>C. quadricarinatus</i>. Contrastingly, male <i>C. quadricarinatus</i> had significantly higher closing forces than both sexes of <i>P. clarkii</i> and female <i>C. quadricarinatus</i>, however, there was no difference between female <i>P. perlatus</i>. Native <i>P. perlatus</i> has the capacity to hold a competitive mechanical advantage over both invaders, but this varies with sex. Chelae length was not a significant predictor for closing strength in any of the species, which may be related to dishonest signalling in decapod species. This makes it imperative to assess whether factors such as closing force actually translate to resource holding potential in a contest scenario. We thus provide evidence that African freshwater crabs may exhibit biotic resistance towards invasion and the first measurements for <i>C. quadricarinatus</i> closing force strength.
DOI: 10.6084/m9.figshare.11993970.v1
title: Metadata record for: An interactive database of Leishmania species distribution in the Americas

description: This dataset contains key characteristics about the data described in the Data Descriptor An interactive database of Leishmania species distribution in the Americas. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> <br>
DOI: 10.6084/m9.figshare.11993916
title: SNP.xlsx

description: A total of 507 unrelated patients with IS from the northeastern Chinese Han population were consecutively recruited from the same center and included in this study. All recruited patients were diagnosed by an experienced neurologist according to their clinical features and by auxiliary diagnosis, including computed tomography (CT) and/or magnetic resonance imaging (MRI) and routine laboratory tests. Based on these complications, the case group was divided into an IS with or without hypertension subgroup and with or without diabetes subgroup. Based on the Trial of Org 10172 in Acute Stroke Treatment (TOAST) classification the IS patients were further categorized into atherothrombosis subtype, lacunar infarction subtype and both atherothrombosis and lacunar infarction subtype(Adams et al., 1993). The control group consisted of 503 unrelated gender-matched and geography-matched healthy individuals from the Health Medical Center, they were without stroke, hypertension, diabetes, heart disease, and other central nervous system disorders.
DOI: 10.6084/m9.figshare.11993946
title: Gauvadis.zip

description: Summary statistics for genetic association with RNA editing level in Geuvadis dataset.
DOI: 10.6084/m9.figshare.11993916.v1
title: SNP.xlsx

description: A total of 507 unrelated patients with IS from the northeastern Chinese Han population were consecutively recruited from the same center and included in this study. All recruited patients were diagnosed by an experienced neurologist according to their clinical features and by auxiliary diagnosis, including computed tomography (CT) and/or magnetic resonance imaging (MRI) and routine laboratory tests. Based on these complications, the case group was divided into an IS with or without hypertension subgroup and with or without diabetes subgroup. Based on the Trial of Org 10172 in Acute Stroke Treatment (TOAST) classification the IS patients were further categorized into atherothrombosis subtype, lacunar infarction subtype and both atherothrombosis and lacunar infarction subtype(Adams et al., 1993). The control group consisted of 503 unrelated gender-matched and geography-matched healthy individuals from the Health Medical Center, they were without stroke, hypertension, diabetes, heart disease, and other central nervous system disorders.
DOI: 10.6084/m9.figshare.11993946.v1
title: Gauvadis.zip

description: Summary statistics for genetic association with RNA editing level in Geuvadis dataset.
DOI: 10.6084/m9.figshare.11993883
title: Metadata record for: Epigenomic profiling of neuroblastoma cell lines

description: This dataset contains key characteristics about the data described in the Data Descriptor Epigenomic profiling of neuroblastoma cell lines. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> <br>
DOI: 10.6084/m9.figshare.11993874
title: Preventing pancreatic fistula with combination of stump stapling and suturing in laparoscopic distal pancreatectomy

description: <b>Preventing pancreatic fistula with combination of stump stapling and suturing in laparoscopic distal pancreatectomy</b><b></b><br>
DOI: 10.6084/m9.figshare.11993883.v1
title: Metadata record for: Epigenomic profiling of neuroblastoma cell lines

description: This dataset contains key characteristics about the data described in the Data Descriptor Epigenomic profiling of neuroblastoma cell lines. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> <br>
DOI: 10.6084/m9.figshare.11993874.v1
title: Preventing pancreatic fistula with combination of stump stapling and suturing in laparoscopic distal pancreatectomy

description: <b>Preventing pancreatic fistula with combination of stump stapling and suturing in laparoscopic distal pancreatectomy</b><b></b><br>
DOI: 10.15468/w9f98a
title: Model mimics: antlike jumping spiders of the genus Myrmarachne from Sri Lanka

description: This dataset contains the digitized treatments in Plazi based on the original journal article Benjamin, Suresh P. (2015): Model mimics: antlike jumping spiders of the genus Myrmarachne from Sri Lanka. Journal of Natural History 49 (43): 2609-2666, DOI: 10.1080/00222933.2015.1034209
DOI: 10.6084/m9.figshare.11993709
title: Supplementary Material for: Increased Quinolone-Resistant Mutations of gyrA and parC Genes after Pouchitis Treatment with Ciprofloxacin

description: <b><i>Background:</i></b> Oral antibiotics, such as ciprofloxacin (CFX), are widely used for the treatment of acute and chronic pouchitis. Most bacterial mutations that confer quinolone resistance are at Ser-83 and Asp-87 in the <i>gyrA</i> gene and Ser-80 and Glu-84 in the <i>parC</i> gene. <b><i>Methods:</i></b> We obtained 51 stool samples from 43 patients who were diagnosed with ulcerative colitis and underwent ileal pouch-anal anastomosis. Patients were divided into 2 groups: 13 patients with CFX treatment of pouchitis and 30 patients without pouchitis. After extraction of fecal DNA, the amount of <i>Escherichia coli 16S rRNA</i>, <i>gyrA</i>, and <i>parC</i> gene DNA were measured using real-time polymerase chain reaction (PCR). Possible mutations at <i>gyrA</i> 83 and 87 and at <i>parC</i> 80 and 84 were investigated by PCR cloning and sequencing, and mutation rates were quantified by rapid PCR-restriction fragment length polymorphism. <b><i>Results:</i></b> Samples from both CFX-treated and -untreated patients had comparable levels of <i>gyrA</i> and <i>parC</i> gene DNA. Nucleic acid and amino acid mutations were identified at <i>gyrA</i> 83 and 87, and at <i>parC</i> 80 and 84. We successfully quantified mutation rates at <i>gyrA</i> 83 and 87, and at <i>parC</i> 84, all of which were significantly higher in samples from CFX-treated patients (70, 84, and 38%) than from CFX-untreated patients (13, 11, and 5%). <b><i>Conclusion:</i></b> <i>E. coli</i> in patient pouches may have mutations in their <i>gyrA</i> and <i>parC</i> genes that produce CFX resistance. Mutation rates of these genes were significantly higher in samples from CFX-treated patients. This study contributes to understanding the decrease and loss of CFX effectiveness against pouchitis.
DOI: 10.6084/m9.figshare.11993709.v1
title: Supplementary Material for: Increased Quinolone-Resistant Mutations of <b><i>gyrA</i></b> and <b><i>parC</i></b> Genes after Pouchitis Treatment with Ciprofloxacin

description: <b><i>Background:</i></b> Oral antibiotics, such as ciprofloxacin (CFX), are widely used for the treatment of acute and chronic pouchitis. Most bacterial mutations that confer quinolone resistance are at Ser-83 and Asp-87 in the <i>gyrA</i> gene and Ser-80 and Glu-84 in the <i>parC</i> gene. <b><i>Methods:</i></b> We obtained 51 stool samples from 43 patients who were diagnosed with ulcerative colitis and underwent ileal pouch-anal anastomosis. Patients were divided into 2 groups: 13 patients with CFX treatment of pouchitis and 30 patients without pouchitis. After extraction of fecal DNA, the amount of <i>Escherichia coli 16S rRNA</i>, <i>gyrA</i>, and <i>parC</i> gene DNA were measured using real-time polymerase chain reaction (PCR). Possible mutations at <i>gyrA</i> 83 and 87 and at <i>parC</i> 80 and 84 were investigated by PCR cloning and sequencing, and mutation rates were quantified by rapid PCR-restriction fragment length polymorphism. <b><i>Results:</i></b> Samples from both CFX-treated and -untreated patients had comparable levels of <i>gyrA</i> and <i>parC</i> gene DNA. Nucleic acid and amino acid mutations were identified at <i>gyrA</i> 83 and 87, and at <i>parC</i> 80 and 84. We successfully quantified mutation rates at <i>gyrA</i> 83 and 87, and at <i>parC</i> 84, all of which were significantly higher in samples from CFX-treated patients (70, 84, and 38%) than from CFX-untreated patients (13, 11, and 5%). <b><i>Conclusion:</i></b> <i>E. coli</i> in patient pouches may have mutations in their <i>gyrA</i> and <i>parC</i> genes that produce CFX resistance. Mutation rates of these genes were significantly higher in samples from CFX-treated patients. This study contributes to understanding the decrease and loss of CFX effectiveness against pouchitis.