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1,123 results for “Cis”
Rocuronium vs Cis-atracurium: Do Rocuronium Still 'ROCKS' In Coronary Artery Bypass Grafting
ClinicalTrials.gov study NCT06102915. IPD Sharing: UNDECIDED. Countries: 1. Publications: 5.
A Study to Evaluate the Safety and Efficacy of SHR-1210, Gemcitabine and Cis-platinum by R/M NPC Subjects
ClinicalTrials.gov study NCT03121716. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
13-Cis Retinoic Acid With or Without Vitamin E for Prevention of Lung Cancer
ClinicalTrials.gov study NCT00002586. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Study of Cyclosporine Inhalation Solution (CIS) in Improving Bronchiolitis Obliterans Syndrome-Free Survival Following Lung Transplantation
ClinicalTrials.gov study NCT00755781. IPD Sharing: Not stated. Countries: 2. Publications: 8.
Data from: Repeat variants for the SbMATE transporter protect sorghum roots from aluminum toxicity by transcriptional interplay in cis and trans
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Deep cis-regulatory homology of the butterfly wing pattern groundplan
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Data from: The evolution of heat shock protein sequences, cis-regulatory elements, and expression profiles in the eusocial Hymenoptera
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A probable oligochaete from an Early Triassic Lagerstätte of the southern Cis-Urals and its evolutionary implications
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Cis-regulatory variation in the shavenbaby gene underlies intraspecific phenotypic variation, mirroring interspecific divergence in the same trait
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The genetic architecture of cell-type-specific cis-regulation in maize
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Dcp2 C-terminal cis-binding elements control selective targeting of the decapping enzyme by forming distinct decapping complexes
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The cis-regulatory codes of response to combined heat and drought stress in Arabidopsis thaliana
<p>Datasets used to train and test random forest and convolutional neural networks to predict transcriptional response patterns to single and combined heat and drought stress in Arabidopsis. Rows correspond to genes. The first column denotes the class with 1 indicating response group and 0 indicating non-responsive group (e.g. "NNU_merged_df.txt": 1 = NNU, 0 = NNN). The remaining columns are the pCRE and pCRE-omic overlap features, where "1" denotes the pCRE is present in the promoter region of that gene (or present and overlaping with the omic-feature) and "0" denotes the pCRE is not present (or present but not overlapping with the omic-feature). Feature names indicate the pCRE and omic-feature: "pCRE_OmicFeature" </p> <p><strong>For more information on how these datasets were generated and code used to implement and interpret the machine learning models see the manuscript and associated GitHub repository.</strong></p> <p>GitHub: <a href="https://github.com/ShiuLab/Manuscript_Code/tree/master/2019_CRC_HeatDrought">https://github.com/ShiuLab/Manuscript_Code/tree/master/2019_CRC_HeatDrought</a></p> <p>Abstract: Plants respond to their environment by dynamically modulating gene expression. A powerful approach for understanding how these responses are regulated is to integrate information about <em>cis-</em>regulatory elements (CREs) into models called <em>cis-</em>regulatory codes. Transcriptional response to combined stress is typically not the sum of the responses to the individual stresses. However, <em>cis-</em>regulatory codes underlying combined stress response have not been established. Here we modeled transcriptional response to single and combined heat and drought stress in <em>Arabidopsis thaliana.</em> We grouped genes by their pattern of response (independent, antagonistic, synergistic) and trained machine learning models to predict their response using putative CREs (pCREs) as features (median F-measure = 0.64). We then developed a deep learning approach to integrate additional omics information (sequence conservation, chromatin accessibility, histone modification) into our models, improving performance by 6.2%. While pCREs important for predicting independent and antagonistic responses tended to resemble binding motifs of transcription factors associated with heat and/or drought stress, important synergistic pCREs resembled binding motifs of transcription factors not known to be associated with stress. These findings demonstrate how <em>in silico</em> approaches can improve our understanding of the complex codes regulating response to combined stress and help us identify prime targets for future characterization.</p>
Data from: Complex patterns of cis-regulatory polymorphisms in ebony underlie standing pigmentation variation in Drosophila melanogaster
Pigmentation traits in adult Drosophila melanogaster were used in this study to investigate how phenotypic variations of continuous ecological traits can be maintained in a natural population. First, pigmentation variation in the adult female was measured at seven different body positions in 20 strains from the Drosophila melanogaster Genetic Reference Panel (DGRP) originating from a natural population in North Carolina. Next, to assess the contributions of cis-regulatory polymorphisms of the genes involved in the melanin biosynthesis pathway, allele-specific expression levels of four genes were quantified by amplicon sequencing using a 454 GS Junior. Among those genes, ebony was significantly associated with pigmentation intensity of the thoracic segment. Detailed sequence analysis of the gene regulatory regions of this gene indicated that many different functional cis-regulatory alleles are segregating in the population and that variations outside the core enhancer element could potentially play important roles in the regulation of gene expression. In addition, a slight enrichment of distantly associated SNP pairs was observed in the ~10 kb cis-regulatory region of ebony, which suggested the presence of interacting elements scattered across the region. In contrast, sequence analysis in the core cis-regulatory region of tan indicated that SNPs within the region are significantly associated with allele-specific expression level of this gene. Collectively, the data suggest that the underlying genetic differences in the cis-regulatory regions that control intraspecific pigmentation variation can be more complex than those of interspecific pigmentation trait differences, where causal genetic changes are typically confined to modular enhancer elements.
Data from: Mediation analysis demonstrates that trans-eQTLs are often explained by cis-mediation: a genome-wide analysis among 1,800 South Asians
A large fraction of human genes are regulated by genetic variation near the transcribed sequence (cis-eQTL, expression quantitative trait locus), and many cis-eQTLs have implications for human disease. Less is known regarding the effects of genetic variation on expression of distant genes (trans-eQTLs) and their biological mechanisms. In this work, we use genome-wide data on SNPs and array-based expression measures from mononuclear cells obtained from a population-based cohort of 1,799 Bangladeshi individuals to characterize cis- and trans-eQTLs and determine if observed trans-eQTL associations are mediated by expression of transcripts in cis with the SNPs showing trans-association, using Sobel tests of mediation. We observed 434 independent trans-eQTL associations at a false-discovery rate of 0.05, and 189 of these trans-eQTLs were also cis-eQTLs (enrichment P<0.0001). Among these 189 trans-eQTL associations, 39 were significantly attenuated after adjusting for a cis-mediator based on Sobel P<10-5. We attempted to replicate 21 of these mediation signals in two European cohorts, and while only 7 trans-eQTL associations were present in one or both cohorts, 6 showed evidence of cis-mediation. Analyses of simulated data show that complete mediation will be observed as partial mediation in the presence of mediator measurement error or imperfect LD between measured and causal variants. Our data demonstrates that trans-associations can become significantly stronger or switch directions after adjusting for a potential mediator. Using simulated data, we demonstrate that this phenomenon is expected in the presence of strong cis-trans confounding and when the measured cis-transcript is correlated with the true (unmeasured) mediator. In conclusion, by applying mediation analysis to eQTL data, we show that a substantial fraction of observed trans-eQTL associations can be explained by cis-mediation. Future studies should focus on understanding the mechanisms underlying widespread cis-mediation and their relevance to disease biology, as well as using mediation analysis to improve eQTL discovery.
FIGURE 11 in Redescription of Cis taurus (Reitter, 1878) (Coleoptera: Ciidae)
FIGURE 11. Distribution map for Cis taurus (Reitter, 1878).
FIGURE 97. Brycon falcatus, INHS 43928, 134.4 in A revision of the cis-andean species of the genus Brycon Müller & Troschel (Characiformes: Characidae)
FIGURE 97. Brycon falcatus, INHS 43928, 134.4 mm SL: Peru, Loreto, Río Nanay.
FIGURE 94. Brycon falcatus, INHS 61479, 113.5 in A revision of the cis-andean species of the genus Brycon Müller & Troschel (Characiformes: Characidae)
FIGURE 94. Brycon falcatus, INHS 61479, 113.5 mm SL: Venezuela, Apure, Caño San Miguel.
FIGURE 92. Brycon falcatus, MZUSP 103036, 290.0 in A revision of the cis-andean species of the genus Brycon Müller & Troschel (Characiformes: Characidae)
FIGURE 92. Brycon falcatus, MZUSP 103036, 290.0 mm SL: Brazil, Mato Grosso, rio Aripuanã.
FIGURE 88. Brycon falcatus, MZUSP 61056, 202.2 in A revision of the cis-andean species of the genus Brycon Müller & Troschel (Characiformes: Characidae)
FIGURE 88. Brycon falcatus, MZUSP 61056, 202.2 mm SL; Brazil, Mato Grosso, rio Arinos.
FIGURE 89. Brycon falcatus, MZUSP 48113, 197.7 in A revision of the cis-andean species of the genus Brycon Müller & Troschel (Characiformes: Characidae)
FIGURE 89. Brycon falcatus, MZUSP 48113, 197.7 mm SL: Brazil, Goiás, rio Araguaia.
ScienceDex guides
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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.