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54,099 results for “Expression”
Fig. 3 in Identification and Expression Patterns of Sensory Neuron Membrane Protein Genes from Sitophilus zeamais Motschulsky (Coleoptera: Curculionidae)
Fig. 3. Phylogenetic analysis of insect SNMPs. A tree of SNMPs from Sitophilus zeamais and other insects was made by MEGA7 through the Neighbor-joining method with 1,000 bootstrap replications. The insect species and GenBank accession numbers for all the sequences of SNMPs are as follows: Aethina tumida (AtumSNMP2a/XP_019867287.1, AtumSNMP2b/ XP_019867285.1); Anoplophora chinensis (AchiSNMP1a/AUF73093.1, AchiSNMP1b/AUF73091.1); Anoplophora glabripennis (AglaSNMP2a/XP_018566912.1, AglaSNMP2b/XP_018566911.1); Colaphellus bowringi (CbowSNMP1a/ ALR72542.1, CbowSNMP1b/ALR72543.1, CbowSNMP2/ALR72544.1); Dendroctonus ponderosae (DponSNMP1a/ AGI05171.1, DponSNMP1b/XP_019756753.1, DponSNMP2a/XP_019770615.1, DponSNMP2b/AGI05184.1); Holotrichia parallela (HparSNMP1/AVM18969.1); Leptinotarsa decemlineata (LdecSNMP2/XP_023025981.1); Onthophagus taurus (OtauSNMP1/XP_022906339.1); Phyllotreta striolata (PstrSNMP1/ANQ46504.1, PstrSNMP2/ANQ46505.1); Tenebrio molitor (TmolSMMP1/AJO62245.1); Tribolium castaneum (TcasSNMP1/KYB28032.1, TcasSNMP2a/XP_008198962.1, TcasSMMP2b/ XP_970008.1).
Fig. 1 in Identification and Expression Patterns of Sensory Neuron Membrane Protein Genes from Sitophilus zeamais Motschulsky (Coleoptera: Curculionidae)
Fig. 1. Nucleotide and deduced amino acid sequences of SzeaSNMPs from Sitophilus zeamais. The stop codons are marked with "-", and the black lines below the amino acid sequences indicate the two transmembrane domains. A) SzeaSNMP1a, B) SzeaSNMP1b, C) SzeaSNMP2a, D) SzeaSNMP2b.
The differential inflammatory infiltration and gene expression in left and right atrium in patients with atrial fibrillation
<p><strong>Background: </strong>The difference between left and right atrium in Atrial fibrillation (AF) is still lacking. In the present study, we aimed to identify differences in immune infiltration and differentially expressed genes (DEGs) between atrial tissue in patients with AF and sinus rhythm (SR), and to compare the differences between left and right atrial tissues in AF.</p> <p><strong>Methods:</strong> The gene data of GSE79768, GSE115574, and GSE128188 from the Gene Expression Omnibus (GEO) database were retrieved. After merging all data and adjusting batch effect, DEGs were identified. Single-Sample Gene Set Enrichment Analysis (ssGESA), Functional enrichment analyses based on Gene Ontology (GO) resource, Kyoto Encyclopedia of Genes and Genomes (KEGG) resource, ESTIMATE algorithm were carried out to analyze the difference between AF and SR.</p> <p><strong>Results:</strong> In total, 105 atrial samples from 3 studies were included in the analysis. Compared with SR, AF tissue had more CD8 T cells (P = 0.039) and Th2 cells (P = 0.016), and it had fewer Th17 cells (P = 0.008), Tgd (P < 0.001) and NK CD56dim cells (P = 0.047). The differences between the left and right atrium in AF and SR were analyzed. In AF atrium tissue, a total of 88 DGEs (26 up-regulated, 61 down-regulated) were obtained. The enrichment signaling pathways and biological functions of DGEs were predicted.</p> <p><strong>Conclusions:</strong> The differing immune infiltrating cells and DEGs in left and right atrium indicate that there are different mechanisms for development remodeling and inflammatory environment of AF within the left and right atrium.</p>
Expression of degQ gene and its effect on lipopeptide production as well as formation of secretory proteases in Bacillus subtilis strains
<p><em>Bacillus subtilis</em> is described as a promising production strain for lipopeptides. In case of <em>B. subtilis</em> strains JABs24 and DSM10<sup>T</sup>, surfactin and plipastatin are produced. Lipopeptide formation is controlled, among others, by the DegU response regulator. The activating phospho-transfer by the DegS sensor kinase is stimulated by the pleiotropic regulator DegQ, resulting in enhanced DegU activation. In <em>B. subtilis</em> 168, a point mutation in the <em>degQ</em> promoter region leads to a reduction in gene expression. Corresponding reporter strains showed a 14-fold reduced expression. This effect on <em>degQ</em> expression and the associated impact on lipopeptide formation was examined for <em>B. subtilis</em> JABs24, a lipopeptide-producing derivative of strain 168, and <em>B. subtilis</em> wild-type strain DSM10<sup>T</sup>, which has a native <em>degQ</em> expression. Based on stimulatory effects of the DegU regulator on secretory protease formation, the impact of <em>degQ</em> expression on extracellular protease activity was additionally investigated. To follow the impact of <em>degQ</em>, a deletion mutant was constructed for DSM10<sup>T</sup>, while a natively expressed <em>degQ</em> version was integrated into strain JABs24. This allowed strain-specific quantification of the stimulatory effect of <em>degQ</em> expression on plipastatin and the negative effect on surfactin production in strains JABs24 and DSM10<sup>T</sup>. While an unaffected <em>degQ</em> expression reduced surfactin production in JABs24 about 25%, a 6-fold increase in plipastatin was observed. In contrast, <em>degQ</em> deletion in DSM10<sup>T</sup> increased surfactin titer by 3-fold but decreased plipastatin production by 5-fold. In addition, although significant differences in extracellular protease activity were detected, no decrease in plipastatin and surfactin produced during cultivation was observed.</p>
Data_Tab1_Deletion of the transcription factor Prox-1 specifically in the renal distal convoluted tubule causes hypomagnesemia via reduced expression of TRPM6 and NCC
<p>Data of Tab1 from “Deletion of the transcription factor Prox-1 specifically in the renal distal convoluted tubule causes hypomagnesemia via reduced expression of TRPM6 and NCC”</p> <p>Dataset (doi: 10.1007/s00424-020-02491-1) contains the original publication as PDF-format (10.1007_s00424-020-02491-1.pdf). Corresponding raw data obtained from LC-MS/MS analysis provided as one file in CSV format (31003A-179400_10.1007_s00424-020-02491-1_DW_4-1.csv). All further experiment related information provided as two meta-data-files (31003A-179400_10.1007_s00424-020-02491-1_DW _4-1_M_1.PDF, 31003A-179400_10.1007_s00424-020-02491-1_DW _4-1_M_2.pdf) as PDF format.</p>
Research Data Set for PhD thesis "Political Expression in Web Defacements"
<p>The software used for collection and processing is available at <a href="https://github.com/mkrzmr/Political-Expression-in-Web-Defacements-Crawler">https://github.com/mkrzmr/Political-Expression-in-Web-Defacements-Crawler</a></p>
Individual TE expression detection
<p>This data set was used to study and compare tools with respect to detecting the expression of transposable elements at the level of individual instances.</p>
Data for Mathematical Expressions in Software Engineering Artifacts
<p>Data for the experiments in the paper, Mathematical Expressions in Software Engineering Artifacts.</p> <p>The dataset contains the following sub-directories:</p> <ol> <li>Bug_data: Bug reports from 10 open-sourced projects.</li> <li>MathyB_A: Bug reports annotated by MEDSEA.</li> <li>MathyB_H: Bug reports annotated manually by humans.</li> <li>NNGen_modified_data: Modified log messages of <a href="https://github.com/Tbabm/nngen">NNGen</a> dataset (<a href="https://dl.acm.org/doi/10.1145/3238147.3238190">Neural-machine-translation-based commit message generation: how far are we?</a>) based on the annotations made by MEDSEA.</li> </ol>
The lncRNA TUG1 regulates Smac/DIABLO expression by competitively inhibiting miR-29b and modulates the apoptosis of lens epithelial cells in age-related cataracts
<p>As one of the first discovered lncRNAs, TUG1 has been reported to be widely expressed in a variety of tumours. It promotes cell proliferation, differentiation, apoptosis and migration. However, our understanding of its importance in cataracts is limited. This study aims to explore the mechanism by which TUG1 mediates the apoptosis of lens epithelial cells by regulating the miR-29b/Smac axis in age-related cataracts and to identify more strategies for the nonsurgical treatment of cataracts. In this experiment we found TUG1 and Smac were expressed at high levels in age-related cataract (ARC) samples and HLEB3 cells treated with H2O2, while miR-29b expression was decreased. In vitro cell-based experiments confirmed that the downregulation of TUG1 inhibits lens epithelial cell apoptosis. Mechanistically, Smac expression is negatively regulated by miR-29b. TUG1 competitively inhibits miR-29b expression and causes the release of more Smac. In addition, miR-29b reverses the effect of TUG1 on HLE-B3 cells. In conclusion, lncRNATUG1 increases Smac expression by competitively inhibiting miR-29b and promoting the apoptosis of lens epithelial cells in age-related cataracts. This mechanism is the cytological basis of ARC formation. Based on these results, the TUG1-miR29b-Smac axis may be a new molecular pathway to regulate the development of age-related cataracts.</p>
Data files 2: A plasmid-based E. coli gene expression system with cell-to-cell variation below the extrinsic noise limit
<p>This zip archive contains flow cytometry data used to generate the figures in the submitted manuscript "A plasmid-based Escherichia coli gene expression system with cell-to-cell variation below the extrinsic noise limit" (PONE-D-17-11810). Text files within the archive describe how to open files and which data corresponds to manuscript figures.</p>
Maintenance of spatial gene expression by Polycomb-mediated repression after formation of a vertebrate body plan
<p>This dataset contains zebrafish (<em>Danio rerio</em>) raw RNA and ChIP sequencing data:</p> <ul> <li>RNA-seq: <ul> <li>RNAseq_Wildtype_rep[12].fastq.gz: 2 biological replicates of single-end RNA-seq data from 24hpf wild-type (TU/TL background) whole embryo lysates</li> <li>RNAseq_Wildtype_rep[3-6].fastq.gz 4 biological replicates of paired-end RNA-seq data from 24hpf wild-type (TU/TL background) whole embryo lysates</li> </ul> </li> <li>ChIP-seq: <ul> <li>lane1_MPZezh2WT-24hpf-Ezh2__R[12].fastq.gz: 1 sample of paired-end Ezh2 ChIP-seq data from 24hpf wild-type (TU/TL background) whole embryo lysates</li> <li>lane1_MPZezh2WT-24hpf-Rnf2__R[12].fastq.gz: 1 sample of paired-end Rnf2 ChIP-seq data from 24hpf wild-type (TU/TL background) whole embryo lysates</li> <li>lane1_MPZezh2WT-24hpf-H3K27me3__R[12].fastq.gz: 1 sample of paired-end H3K27me3 ChIP-seq data from 24hpf wild-type (TU/TL background) whole embryo lysates</li> <li>*MPZezh2WT-24hpf-H3K4me3*: 2 biological replicates of paired-end H3K4me3 ChIP-seq data from 24hpf wild-type (TU/TL background) whole embryo lysates</li> <li>MPZezh2WT-24hpf-Ezh2-spikein-13277_R[12].fastq.gz: 1 sample of paired-end Ezh2 ChIP-seq data (with Drosophila H2Ay spike in) from 24hpf wild-type (TU/TL background) whole embryo lysates</li> <li>MPZezh2WT-24hpf-H3K27A[cC]*: 2 biological replicates of paired-end H3K27ac ChIP-seq data from 24hpf wild-type (TU/TL background) whole embryo lysates</li> <li>MPZezh2WT-24hpf-H3K27me3-spikein-13275_R[12].fastq.gz: 1 sample of paired-end H3K27me3 ChIP-seq data (with Drosophila H2Ay spike in) from 24hpf wild-type (TU/TL background) whole embryo lysates</li> </ul> </li> </ul>
Spontaneous mimicry of live facial expressions: A biological mechanism for emotional contagion
<p>Observation of live facial expressions typically elicits similar expressions (facial mimicry) accompanied by shared emotional experiences (emotional contagion). The model of embodied emotion proposes that emotional contagion and facial mimicry are functionally linked although the neural underpinnings are unknown. To address this knowledge gap we employed two-person (n = 20 dyads) functional near-infrared spectroscopy during live emotive face-processing while also measuring eye-tracking, facial classifications, and ratings of emotion. One partner, "Movie Watcher", was instructed to emote natural facial expressions while viewing evocative short movie clips. The other partner, "Face Watcher", viewed the Movie Watcher's face. Dyadic roles were alternated between partners. Task and rest blocks were implemented by timed epochs of clear and opaque glass that separated partners. Correlations of dyadic facial expressions (r = 0.41) and dyadic affect ratings (r = 0.66) were consistent with findings of both emotional contagion and facial mimicry. Neural correlates of emotional contagion based on covariates of partner ratings included right angular and supramarginal gyri. Neural correlates of mimicry associated with partner facial action units include core face recognition system. Thus, the proposed linkages between facial mimicry and emotional contagion represent separate components of face processing.</p>
Transcriptomic analysis demonstrates the expression, origin and function of lncRNAs in multiple skin diseases
<p>Transcriptomic analysis demonstrates the expression, origin and function of lncRNAs in multiple skin diseases</p>
Table S6.44,270 pairs of co-expression relationships Between 612 lncRNAs and 2,742 mRNAs
<p>The file includes information about 44270 lncRNA-mRNA pairs related to lncRNA.ensembl,lncRNA.symbol,gene.ensembl,gene.symbol,r,FDR, as well as information about 612 lncRNAs and 2742 mRNAs associated with 44274 co-expressed gene pairs. Where, r denotes differential gene significance coefficient; p-value was corrected by Benjamini-Hochberg algorithm to obtain FDR value.</p>
Table S5. The differential expression of 5946 genes in cancer and normal tissues
<p>The file contains GeneID, GeneType, symbol, logFC, FDR, RCI, OverallSurv, DiseaseFreeSurv information for 5946 genomes. Among them, FDR indicates false discovery rate;RCI indicates the logarithm of the ratio of concentration to nucleus (Log<sub>2</sub>), positive value indicates distribution in cytoplasm, negative value indicates distribution in nucleus; 0 in OverallSurv and DiseaseFreeSurv indicates insignificant, 1 indicates significant.</p>
Systematic Gene Expression Mapping Clusters Nuclear Receptors According to Their Function in the Brain - Website save
<p>This is a copy of the website that was related to mousepat.ics-mci.fr</p>
High-resolution African HLA resource uncovers HLA-DRB1 expression effects underlying vaccine response: summary statistics
<p>How human genetic variation contributes to vaccine immunogenicity and effectiveness is unclear, particularly in infants from Africa. We undertook genome-wide association analyses of eight vaccine antibody responses in 2,499 infants from three African countries and identified significant associations across the human leukocyte antigen (HLA) locus for five antigens spanning pertussis, diphtheria and hepatitis B vaccines. Using high-resolution HLA typing in 1,706 individuals from 11 African populations we constructed a continental imputation resource to fine-map signals of association across the class II HLA observing genetic variation explaining up to 10% of the observed variance in antibody responses. Using follicular helper T-cell assays, <em>in silico</em> binding, and immune cell eQTL datasets we find evidence of <em>HLA-DRB1</em> expression correlating with serological response and inferred protection from pertussis following vaccination. This work improves our understanding of molecular mechanisms underlying HLA associations that should support vaccine design and development across Africa with wider global relevance.</p>
Elemental bioimaging and transcriptomics – no evidence of altered gene expression after single injection of Gadolinium-based contrast agents in mice cerebellum
<p>single read RNA data for GBCA study</p>
Intranasal Insulin Treatment Alters Gene Expression Profile in the Hippocampus of Rats with Perinatal Iron Deficiency
<p>Datasets for rat hippocampal RNAseq experiment. </p>
Data for: TE positions and expression levels in Macrotermes natalensis
<p>Transposable elements (TEs) are mobile genetic sequences, which can cause the accumulation of genomic damage in the life time of an organism. The regulation of TEs, for instance via the piRNA-pathway, is an important mechanism to protect the integrity of genomes, especially in the germ-line where mutations can be transmitted to offspring. In eusocial insects soma and germ-line are divided among worker and reproductive castes, so one may expect caste-specific differences in TE regulation to exist. To test this, we compared whole-genome levels of repeat element transcription in the fat body of female workers, kings, and five different queen stages of the higher termite, Macrotermes natalensis. In this species, queens can live over 20 years, maintaining near maximum reproductive output, while sterile workers only live weeks or months. We found a strong, positive correlation between TE expression and the expression of neighbouring genes in all castes. However, we found substantially higher TE activity in workers than in reproductives. Furthermore, TE expression did not increase with age in queens, despite a seven-fold increase in gene expression, due to a significant upregulation of the piRNA-pathway in 20-year-old queens. Our results suggest a caste- and age-specific regulation of the piRNA-pathway has evolved in higher termites that is analogous to germline-specific activity in individual organisms. In the fat body of these termite queens, an important metabolic tissue for maintaining their extreme longevity and reproductive output, an efficient regulation of TEs likely protects genome integrity, thus further promoting reproductive fitness even at high age.</p>
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.