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Mafft-linsi assembled amino acid neuropeptide precursor sequences from 41 blattodean and 3 polyneopteran outgroup species; these data are deduced from transcriptome sequence assemblies obtained from the 1KITE project (Genbank Umbrella Bioproject ID PRJNA183205). For Zootermopsis nevadensis (Isoptera), annotated precursor sequences (Veenstra, 2014) were included in the alignments after their annotations were manually checked. Incomplete sequences are indicated with “?”. In total 17 individual neuropeptide precursor alignments are given. Additionally, a concatenated alignment of the complete dataset, a concatenated alignment of signal peptide sequences (calculated using SignalP-5.0) and a concatenated alignment of the remaining precursor without the signal peptide sequence (Propeptide) are given. Furthermore, a concatenated alignment of neuropeptide sequences and a concatenated alignment of the remaining precursor peptide sequences are given. In addition, concatenated alignments of single-copy and multiple-copy neuropeptides are given.
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This dataset contains the microbial shotgun “de novo” assembly and the log file for the assembly run done with metaSPAdes software, from the selected landfill microbial community BP8. This analysis was performed with 17 282 414 raw reads obtained by paired-end sequencing using NextSeq 500 Illumina platform. The archive contigs.fasta contains the raw assembly output with no parsing. More data can be found in Preprint by Gaytán et al., (2019), web address: https://www.biorxiv.org/content/10.1101/760637v2.full
Data Types:
  • Sequencing Data
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the folder contains input and setup files of the article An Alternative Method to Determine Extreme Hydrodynamic Forces with Data Limitations for Offshore Engineering
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Pediatric hypertension is recognized as an emerging global health concern. While new guidelines are developed for facilitating clinical management, the reasons for the prevalence of hypertension in children remain unknown. Genetics and environmental factors do not fully account for the growing incidence of pediatric hypertension. Because stable bacterial flora in early life are linked with health outcomes later in life, we hypothesized that reshaping of gut microbiota in early developmental stages of life affects blood pressure (BP) of pediatric subjects. To test this hypothesis, we administered amoxicillin, the most commonly prescribed pediatric antibiotic, to alter gut microbiota of young, genetically hypertensive rats (study 1) and dams during gestation and lactation to reshape microbiota of offspring (study 2). Reshaping of microbiota, with reductions in Firmicutes/Bacteriodetes ratio observed in Amoxicillin treated young rats and in dams. Amoxicillin treated rats also had lower blood pressure compared to the untreated rats. In the young rats treated with amoxicillin, the lowering effect on blood pressure persisted even after the antibiotics were discontinued. Similarly, the offspring from the dams treated with amoxicillin also showed lower systolic blood pressure compared to the control rats. Remarkably, in all cases, a decrease in BP was associated with lowering of Veillonellaceae, which are succinate-producing bacteria. Elevated plasma succinate is reported in hypertension. Accordingly, serum succinate was measured and found lower in animals treated with amoxicillin. Our results demonstrate a direct correlation between succinate-producing gut microbiota and early development of hypertension, and indicate that reshaping gut microbiota, especially by depleting succinate-producing microbiota early in life may have long-term benefits for hypertension-prone individuals.
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Primary giant cell tumor originating in the rib is rare, resembling giant cell tumor in the epiphyseal region of long tubular bones morphologically and immunologically. However, this lesion poses a great challenge for diagnosis due to uncommon clinical and radiological presentation and histological heterogeneity. Here we report two cases of huge giant cell tumor of ribs presented as soft tissue mass. The first patient presented as a large expanding soft tissue mass in the right thoracic cavity attached to the 4th and 5th ribs with bone destruction. The second patient showed an ill-defined soft tissue mass in the left retroperitoneum. The maximum diameter of the lesions are greater than 15cm. Apart from the typical lesion with giant cell tumor evenly distributed among the mononuclear cells, there are secondary change including multiple hemorrhage cyst formation, irregular ossification and spindle cell proliferation, which mimics malignancies. H3.3 p.G34W immunohistochemistry and H3F3A mutation detected by Sanger sequencing supported the diagnosis of giant cell tumor. Our studies emphasized radiological and histological polymorphism and the diagnostic value H3F3A mutation, with a review of other published reports to assess radiological and pathological diagnosis and outcomes in case of misdiagnosis and overtreatment.
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Dracala spotting assay, ITC measurements, Malachite Green Assay, in vitro and in vivo crosslinking , DNA loading assay, Sequence alignment used for DCA, Single Molecule Imaging
Data Types:
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This study explores the changes in histone modifications of Sorghum bicolor (L.) Moench through developmental stages and in response to drought stress in two genotypes. We analyzed the leaves of 48 plants using top-down mass spectrometry and identified 26 unique histone proteins and 677 unique histone proteoforms. This is the collection of processed data and scripts used for data processing.
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Raw 16S rRNA sequencing data from luminal contents from sections of the small (SI) and large intestines (LI) of 10 Swiss-Webster female mice (S+) that were infected with 200 S. mansoni cercariae and 10 age- and gender-matched mice that remained uninfected and were included as controls (S-). For each S+ and S- group, five mice were euthanised 28 days after infection (D28 p.i., i.e. before egg laying by sexually mature S. mansoni females had commenced). The remaining mice (n = 5 for each S+ and S-) were euthanised at day 50 p.i. (D50 p.i., corresponding with ongoing egg laying by sexually mature S. mansoni females). The experiment was carried out in duplicate and samples from both experiments (i.e. Exp. 1 & Exp. 2) pooled for further analysis. The data set includes four types of files: 1. Raw joined read files - 1 per sample (demultiplexed): e.g. Exp1_SI_S-_D50_1.fasta 2. Joined, quality filtered file containing reads from all samples and ready for OTU picking. The file was generated using Qiime: seqs.fna 3. Metadata file containing the relevant contextual information for each sample: Schisto_microbiome_Metadata.csv 4. OTU table created using Qiime including all of the taxonomic information: otu_table_mc2_w_tax_no_pynast_failures.biom
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Additional results and data
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Filtered SNP dataset genotyped for 376 specimens of Anopheles cruzii from Sao Paulo, Brazil.
Data Types:
  • Sequencing Data
  • Dataset
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