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Dataset results
420 results for “novel associations”
CRIG identifies a novel population of highly phagocytic peritoneal macrophages associated with disease severity in patients with cirrhosis and ascites
GEO Series GSE79833. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
Small RNAome profiling from human skeletal muscle: Novel miRNAs and their targets associated with cancer cachexia
GEO Series GSE75473. Homo sapiens. 43 samples. Type: Non-coding RNA profiling by high throughput sequencing.
EGCG-treated non-small cell lung cancer associated signature miRNA expression analysis: NGS approach for novel miRNA sequence detection
GEO Series GSE110514. Homo sapiens. 3 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Symbiotic moss-cyanobacteria associations as a novel source of biological N2-fixation in temperate grasslands
<p><span><span><span><span><span><span><span><span><span><span><span><b>Aims. </b>Terrestrial mosses contribute significantly to nitrogen budgets in boreal forests through symbiotic associations with N<sub>2</sub>-fixing cyanobacteria, but few studies have considered these interactions in temperate systems. We investigated how N<sub>2</sub>-fixation by moss-cyanobacterial associations contribute spatio-temporally to site-level N dynamics in a western North American prairie ecosystem.</span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Methods. </b>We first tested for the presence of N<sub>2</sub>-fixing cyanobacteria on six moss species using epi-fluorescence light microscopy. We then used an acetylene reduction assay to estimate monthly N<sub>2</sub>-fixation rates in moss-cyanobacteria associations across three prairies located in the Puget Sound, Washington State, USA. We evaluated temperature and precipitation effects on N<sub>2</sub>-fixation activity. </span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Results. </b>We confirmed the presence of N<sub>2</sub>-fixing cyanobacteria on three moss species (<i>Pleurozium schreberi </i>(Brid.) Mitt.<i>, Racomitrium elongatum </i>Frisvoll<i>, Rhytidiadelphus triquetrus </i>(Hedw) Warnst.) and found species, site and seasonal variation in N<sub>2</sub>-fixation rates. <i>Racomitrium elongatum</i> exhibited the highest N<sub>2</sub>-fixation rates, with peaks in April and August. We found that temperature and precipitation were strongly correlated with N<sub>2</sub>-fixation rates and likelihood of activity. </span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Conclusions. </b>Our results highlight a previously undescribed source of biological N<sub>2</sub>-fixation in temperate grasslands. Changes in the distribution and activity of these species due to climate change and management practices could impact stand-level nitrogen dynamics. </span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span> </span></span></span></span></span></span></span></span></span></span></span></p>
Data from: An antibody screen of a Plasmodium vivax antigen library identifies novel merozoite proteins associated with clinical protection
Background. Elimination of Plasmodium vivax malaria would be greatly facilitated by the development of an effective vaccine. A comprehensive and systematic characterization of antibodies to P. vivax antigens in exposed populations is useful in guiding rational vaccine design. Methodology/Principal Findings. In this study, we investigated antibodies to a large library of P. vivax entire ectodomain merozoite proteins in 2 Asia-Pacific populations, analysing the relationship of antibody levels with markers of current and cumulative malaria exposure, and socioeconomic and clinical indicators. 29 antigenic targets of natural immunity were identified. Of these, 12 highly-immunogenic proteins were strongly associated with age and thus cumulative lifetime exposure in Solomon Islanders (P<0.001-0.027). A subset of 6 proteins, selected on the basis of immunogenicity and expression levels, were used to examine antibody levels in plasma samples from a population of young Papua New Guinean children with well-characterized individual differences in exposure. This analysis identified a strong association between reduced risk of clinical disease and antibody levels to P12, P41, and a novel hypothetical protein that has not previously been studied, PVX_081550 (IRR 0.46-0.74; P<0.001-0.041). Conclusion/Significance. These data emphasize the benefits of an unbiased screening approach in identifying novel vaccine candidate antigens. Functional studies are now required to establish whether PVX_081550 is a key component of the naturally-acquired protective immune response, a biomarker of immune status, or both.
Unusual enzymology and peptide natural products from novel Acidobacteriota spp. associated with reef-building corals
<h1>Unusual enzymology and peptide natural products from novel Acidobacteriota spp. associated with reef-building corals</h1> <p>Raw Data for characterisation of RiPP BGCs from Acidobacteriota:</p> <h2>Plasmids</h2> <p>Plasmid maps of constructs used for heterologous production of precursors and maturases in<em> E. coli</em> in .gb format.</p> <h2>Aci</h2> <p>.raw LC-MS files of proteolytic digests (GluC) of AciA1 and AciA2 produced with or without AciKC.</p> <h2>Tha</h2> <p>.raw LC-MS files of proteolytic digests (Try or AspN) of ThaA produced with or without ThaM and/or ThaO.<br>Subfolders include LC-MS files of 13C and 15N labelling data, derivatisation with IAA, RaneyNi, and Marfey's reagent, and point mutants.</p> <h2>The</h2> <p>.raw LC-MS files of proteolytic digests (AspN) of native TheA produced with or without TheO/ TheB/ TheM/ TheN, as well as LC-MS files of proteolytic digests (AspN or Try) of point mutants, truncations and cargo-fusions produced in the presence of TheO or without.<br>Additional subfolders include MS/MS data and plasmids as .gb files.</p> <h2>NMR</h2> <p>Raw data files for 1H (1), 1H-1H COSY (2), NOESY (3), HSQC (4), and HMBC (5) spectra of purified and modified tryptic fragment of ThaA.</p> <h2>MolecularNetworking</h2> <p>Output files generated from GNPS (one folder for the pellet network and one for the supernatant network).</p> <h2>CrudeExtracts</h2> <p>.raw LC-MS files of crude extracts from <em>S. corallicola</em> supernatant (SN) or pellet (P) cultured with and without coral-derived dissolved organic matter. Extracts from medium with or without DOM (but no <em>S. corallicola</em>) are labelled with "_neg".</p> <h2>RNAseq</h2> <p>R script and input files--including raw feature counts, plasmidsaurus feature annotations, antiSMASH feature annotations and DESeq2 results--used to analyse BGC transciption data from cultivating <em>S. corallicola</em> with and without coral-dervied dissolved organic matter.</p> <h2>CellCounts</h2> <p>Raw data files, metadata, and modified cell count data from cultivating <em>S. corallicola</em> with and without coral-dervied dissolved organic matter.</p>
How New Zealand adults who smoked understand novel tobacco 'endgame' policies. Qualitative analysis using the Associative Propositional Evaluation model to determine comprehension. Raw data.
<p>Raw data used for analysis presented in results paper. </p> <p><strong><span>Compliance with Ethical Standards</span></strong></p> <p><span>Ethics approval was sought from the Health and Disability Ethics Committee (HDEC), but the study was deemed out of HDEC’s scope as it was an observational study that would not involve more than minimal risk, that is, no more risk than participants might encounter during everyday life.</span></p> <p><strong><span>Disclosure statement</span></strong></p> <p><span>This study was funded with a grant [COE1-009] from the Foundation for a Smoke-Free World, Inc. (“FSFW”), a US nonprofit 501(c)(3) private foundation. The FSFW’s mission is to end smoking in this generation. Through September 2023, the Foundation received charitable gifts from PMI Global Services Inc. (“PMI”). Independent from PMI since its founding in 2017, the Foundation continues to operate in a manner that ensures its independence from any commercial entity. This study is, under the terms of the grant agreement with FSFW, editorially independent of FSFW. The FSFW were not involved in the conception, design, conduct, data collection, analysis and interpretation of data; nor did the FSFW review or have any involvement in the writing of the paper or involvement or restrictions regarding publication. The contents, selection, and presentation of facts, as well as any opinions expressed herein, are the sole responsibility of the authors and under no circumstances should they be regarded as reflecting the positions of FSFW. </span><span>None of the authors nor does the Centre have any commercial interests in any smoking cessation programs or aids or nicotine or tobacco products.</span></p>
Integrative analysis across 3,604 GWAS reveals multiple novel cell type-specific regulatory associations
<p>This dataset contains files associated with the manuscript "Integrative analysis across 3,604 GWAS reveals multiple novel cell type-specific regulatory associations". This manuscript presents Functional element Overlap analysis of the Results of GWAS Experiments 2 (FORGE2), a new method for detecting key phenotype-associated tissues, cell types and regulatory elements using GWAS summary statistics. This manuscript also presents FORGE2 results across several thousand GWAS.</p> <p> </p> <p>FORGE2 code (as of 22 November 2021) is contained in the compressed folder FORGE2.zip.</p> <p>FORGE2 code is also contained on GitHub at https://github.com/charlesbreeze/FORGE2</p> <p> </p> <p>The main figures for the FORGE2 paper, covering the main elements of FORGE2 analysis and results, are:</p> <ul> <li>Figure1.forge2.DHS.pdf</li> <li>Figure2.forge2.histone.marks.pdf</li> <li>Figure3.histone.mark.comparison.pdf</li> <li>Figure4.forge2.chr.states.pdf</li> <li>Figure5.forge2.relationship.between.marks.pdf</li> <li>Figure6.example.analysis.figure.pdf</li> </ul> <p> </p> <p>Legends for all figures and tables are included in the file FORGE2.legends.for.figures.and.tables.pdf</p> <p> </p> <p>The supplementary figures for the FORGE2 paper, covering additional elements of FORGE2 analysis and results, are:</p> <ul> <li>FigureS1.pdf</li> <li>FigureS2.erc.pdf</li> <li>FigureS3.encode.pdf</li> <li>FigureS4.blueprint.pdf</li> <li>FigureS5.H3K4me1.pdf</li> <li>FigureS6.H3K4me3.pdf</li> <li>FigureS7.H3K36me3.pdf</li> <li>FigureS8.H3K27me3.pdf</li> <li>FigureS9.H3K9me3.pdf</li> <li>FigureS10.upset.plot.histone.marks.pdf</li> <li>FigureS11.TssA.pdf</li> <li>FigureS12.TssAFlnk.pdf</li> <li>FigureS13.TssBiv.pdf</li> <li>FigureS14.Tx.pdf</li> <li>FigureS15.TxFlnk.pdf</li> <li>FigureS16.TxWk.pdf</li> <li>FigureS17.ZNF-Rpts.pdf</li> <li>FigureS18.BivFlnk.pdf</li> <li>FigureS19.Enh.pdf</li> <li>FigureS20.EnhBiv.pdf</li> <li>FigureS21.EnhG.pdf</li> <li>FigureS22.Het.pdf</li> <li>FigureS23.Quies.pdf</li> <li>FigureS24.ReprPC.pdf</li> <li>FigureS25.ReprPCWk.pdf</li> <li>FigureS26.upset.plot.chromatin.states.pdf</li> </ul> <p> </p> <p>The supplementary tables for the FORGE2 paper, with additional data regarding FORGE2 analysis and results, are:</p> <ul> <li>Table.S1.erc2.DHS.xlsx</li> <li>Table.S2.erc.xlsx</li> <li>Table.S3.encode.xlsx</li> <li>Table.S4.blueprint.xlsx</li> <li>Table.S5.H3K4me1.xlsx</li> <li>Table.S6.H3K4me3.xlsx</li> <li>Table.S7.H3K36me3.xlsx</li> <li>Table.S8.H3K27me3.xlsx</li> <li>Table.S9.H3K9me3.xlsx</li> <li>Table.S10.chrstate15.xlsx</li> <li>Table.S11.MPNs_example.analysis.forge2.h3.all.xlsx</li> <li>Table.S12.MPNs_example.analysis.forge2.dhs.xlsx</li> </ul> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p>
Novel N6-methylandenosine-related long non-coding RNAs as a Prognostic Signature Associated with Tumor Immune Cell Infiltration in Breast Cancer
<p><strong>Supplementary Figure S1</strong>. The correlation between risk score and six types of tumor-infiltration immune cells in TIMER database.</p> <p><strong>Supplementary Figure S2</strong>. Expression levels of m6A-LPS related lncRNAs in 16 breast cancer tissues and paired normal breast tissues.</p>
Figures 28-29 from: Zacharczenko B, Wagner D, Hatfield M (2014) A new cryptic Sympistis from eastern North America revealed by novel larval phenotype and host plant association (Lepidoptera, Noctuidae, Oncocnemidinae). ZooKeys 379: 93-107. https://doi.org/10.3897/zookeys.379.5765
Figures 28-29 - Sympistis forbesi pupa 28 ventral 29 lateral.
Picture 2 from: Morano E, Bonal R (2016) Cheiracanthium ilicis sp. n. (Araneae, Eutichuridae), a novel spider species associated with Holm Oaks (Quercus ilex). ZooKeys 601: 21-39. https://doi.org/10.3897/zookeys.601.8241
Picture 2 - Cheiracanthium ilicis sp. n. adult male.
Picture 1 from: Morano E, Bonal R (2016) Cheiracanthium ilicis sp. n. (Araneae, Eutichuridae), a novel spider species associated with Holm Oaks (Quercus ilex). ZooKeys 601: 21-39. https://doi.org/10.3897/zookeys.601.8241
Picture 1 - Isolated Holm oak Quercus ilex in the study area.
Picture 3 from: Morano E, Bonal R (2016) Cheiracanthium ilicis sp. n. (Araneae, Eutichuridae), a novel spider species associated with Holm Oaks (Quercus ilex). ZooKeys 601: 21-39. https://doi.org/10.3897/zookeys.601.8241
Picture 3 - Cheiracanthium ilicis sp. n. immature
Novel Cellular Therapy for the Treatment of Pain Associated With Chronic Pancreatitis
ClinicalTrials.gov study NCT05925036. IPD Sharing: NO. Countries: 1. Publications: 0.
Novel Diagnostic Methods to Identify External Ventricular Drain Associated Infections
ClinicalTrials.gov study NCT05904535. IPD Sharing: YES. Countries: 1. Publications: 0.
Safety and Effectiveness of Placental Derived Exosomes and Umbilical Cord Mesenchymal Stem Cells in Moderate to Severe Acute Respiratory Distress Syndrome (ARDS) Associated With the Novel Corona Virus
ClinicalTrials.gov study NCT05387278. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Functional Evaluation of Brain Pain Centers in Endometriosis-Associated Chronic Pelvic Pain Exploring the Impact of Central Sensitization Using a Novel MRI Technique
ClinicalTrials.gov study NCT06720181. IPD Sharing: NO. Countries: 1. Publications: 0.
Chronic Loose Stools Following Right-sided Hemicolectomy for Colon Cancer and the Association With Bile Acid Malabsorption and Small Intestinal Bacterial Overgrowth Using a Novel Sampling Device
ClinicalTrials.gov study NCT06927011. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Novel Small Molecule EBNA1 Inhibitor, VK 2019, in Patients With Epstein Barr Virus (EBV)-Positive Nasopharyngeal Cancer (NPC) and Other Epstein-Barr Virus (EBV)-Associated Cancers, With Pharmacokineti
ClinicalTrials.gov study NCT04925544. IPD Sharing: NO. Countries: 1. Publications: 0.
A Novel Repetitive Synchronized Associative Stimulation Neuromodulation Approach for Spinal Cord Injury Patients
ClinicalTrials.gov study NCT06494059. IPD Sharing: NO. Countries: 1. Publications: 0.
ScienceDex guides
Understand access before you commit
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.