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528
datasets available to search
ShareScore release 0.9.0
Dataset results
528 results for “gene prediction”
eVIP2: Expression-based variant impact phenotyping to predict the function of gene variants
GEO Series GSE141963. Homo sapiens. 16 samples. Type: Expression profiling by high throughput sequencing.
Identification of common highly expressed genes of Salmonella Enteritidis by in silico prediction of gene expression and in vitro transcriptomic analysis
GEO Series GSE122177. Salmonella enterica subsp. enterica serovar Enteritidis. 6 samples. Type: Expression profiling by high throughput sequencing.
Gene age predicts the transcriptional landscape of sexual morphogenesis in multicellular fungi [Ptegra1]
GEO Series GSE176180. Pterulicium gracile. 11 samples. Type: Expression profiling by high throughput sequencing.
Comparative transcriptome analyses of three medicinal Forsythia species and prediction of candidate genes involved in secondary metabolisms
GEO Series GSE111376. Forsythia suspensa; Forsythia viridissima; Forsythia koreana. 6 samples. Type: Expression profiling by high throughput sequencing.
Application of machine learning (ML) / deep learning (DL) using multiple epigenetic features reveals H3K27Ac as driver of gene expression prediction across patients with glioblastoma [RNA-Seq]
GEO Series GSE296945. Homo sapiens. 2 samples. Type: Expression profiling by high throughput sequencing.
Predicting HMX bioavailability using microarray gene expression data and regression modeling
GEO Series GSE42866. Eisenia fetida. 120 samples. Type: Expression profiling by array.
Gene signature predictive of response to chemotherapy in mCRC
GEO Series GSE52847. Homo sapiens. 156 samples. Type: Expression profiling by RT-PCR; Expression profiling by array.
Gene expression-based, molecular pathomechanism prediction for GNE myopathy
GEO Series GSE95151. Mus musculus. 42 samples. Type: Expression profiling by array.
Data from: The FlbA-regulated predicted transcription factor rpnR of Aspergillus niger is involved in stress resistance and protein secretion, in Regulators Controlled by the Sporulation Gene flbA of Aspergillus niger (Ph.D. thesis)
Proteins are secreted throughout the mycelium of Aspergillus niger except for the sporulating zone. A link between sporulation and repression of protein secretion was underlined by the finding that inactivation of the sporulation gene flbA results in colonies that secrete proteins throughout the colony. This finding is of interest to improve fungi as a cell factory. However, ΔflbA hyphae also lyse and have thinner cell walls. This pleiotropic phenotype is associated with differential expression of 36 transcription factor genes, of which rpnR was inactivated in this study. Sporulation, biomass, and secretome complexity were not affected in strain ΔrpnR. In contrast, ΔrpnR showed decreased resistance to H2O2 and the proteotoxic stress-inducing agent dithiothreitol. This was associated with reduced ribosomal subunit expression and reduced levels of proteins secreted into the medium. Taken together, RpnR of A. niger is involved in protein synthesis and proteotoxic stress resistance and is thus an interesting target for improving enzyme production capacity.
Data supplement to Manuscript "A 5-Gene Signature (PROGRESS-STYCK) predicts ICU Admission and Death in Community Acquired Pneumonia"
<p>Supplementary RNAseq data for correlation analysis with HT12v4 Chip data</p> <p>This refers to the publication</p> <p><strong>A 5-Gene </strong><strong>Signature (PROGRESS-STYCK) predicts ICU Admission and Death in Community Acquired Pneumonia</strong></p> <p>Holger Kirsten<sup>1</sup>*, Sebastian Weis<sup>2,3,4</sup>*, Peter Ahnert<sup>1</sup>, Martin Witzenrath<sup>5,6</sup>, Brendon P. Scicluna<sup> 7,8</sup>, Knut Krohn<sup>9</sup>, Friedmann Horn<sup>10</sup>Michael Rade<sup> 10</sup>, Catharina Bertram<sup>10</sup>, Kristin Reiche<sup>10</sup>, Dennis Löffler<sup>10</sup>, Conny Blumert<sup>10</sup>, Kai Sohn<sup>11</sup>, Stefan Jenner<sup>11</sup>,, Kai Sohn<sup>11</sup>, Geraldine Nouailles<sup>5</sup>, Michael Kiehntopf<sup>12,13</sup>, Petra Creutz<sup>5</sup>, Markus Loeffler<sup>1</sup>, Norbert Suttorp<sup>5,6</sup>,PROGRESS Study Group, Markus Scholz<sup>1+</sup>, Michael Bauer<sup>2+</sup></p> <p> </p> <p><sup>1</sup> Institute for Medical Informatics, Statistics and Epidemiology (IMISE), Leipzig University, Leipzig, Germany,</p> <p><sup>2</sup> Department of Anesthesiology and Intensive Care Medicine, Jena University Hospital,</p> <p>Friedrich-Schiller-University Jena, Germany</p> <p><sup>3 </sup>Institute for Infectious Disease and Infection Control, Jena University Hospital, Friedrich-Schiller-University Jena, Jena, Germany</p> <p><sup>4 </sup>Leibniz Institute for Leibniz Institute for Natural Product Research and Infection Biology</p> <p>Hans Knöll Institute, Jena</p> <p><sup>5 </sup>Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt-Universität zu Berlin, Department of Infectious Diseases and Respiratory Medicine, Berlin, Germany.</p> <p><sup>6</sup> German Center for Lung Research (DZL), Partner Site Charité, Berlin, Germany.</p> <p><sup>7</sup> Centre for Molecular Medicine and Biobanking, University of Malta, Malta</p> <p><sup>8</sup> Department of Applied Biomedical Science, Faculty of Health Sciences, Mater Dei hospital, University of Malta, Malta</p> <p><sup>9</sup> Core Unit DNA Technologies, Medical Faculty, Leipzig University, Leipzig, Germany.</p> <p><sup>10</sup> Department of Diagnostics, Institute for Cell Therapy and Immunology, Leipzig, Germany</p> <p><sup>11</sup> Fraunhofer Institute for Interfacial Engineering and Biotechnology, Stuttgart, Germany</p> <p><sup>12 </sup>Department of Clinical Chemistry and Laboratory Medicine, Jena University Hospital, Friedrich-Schiller-University Jena, Jena, Germany.</p> <p><sup>13 </sup>Integrated Biobank Jena (IBBJ), Jena University Hospital, Friedrich-Schiller-University Jena, Jena, Germany.</p> <p>*+ these authors contributed equally to the work.</p> <p> </p> <p>For sequencing-based expression quantification, libraries were prepared using globin-mRNA depleted RNA and sequencing was performed with HiSeq2500 sequencing (Illumina, San Diego, CA, USA), with an average sequencing depth of 100 million clusters per sample and 2x100b paired-end reads. Data analysis included demultiplexing, trimming, filtering, removal of low-quality bases, quantification at gene-level, and quality-assessment. Data of measured genes and individuals can be found in file <strong>s816_1_expression_levels_ngs.txt</strong>. </p> <p>For array-based expression quantification, purified RNA was hybridized to Illumina HT-12v4 Expression-BeadChips (Illumina, San Diego, CA, USA). Low-quality samples were removed, and data was log2-transformed, quantile-normalized, batch-corrected and filtered for minimum expression levels, resulting in 26,601 transcripts representing 16,329 unique genes.Data of measured genes and individuals can be found in <strong>s816_1_expression_levels_array.txt</strong></p> <p>Data showing corresponding genes between NGS gene IDs and Array probe IDs can be found in <strong>s816_1_assignment_genes_ngs_array.txt</strong><br> </p>
Gene signature predictive of response to chemotherapy in mCRC [RT-PCR]
GEO Series GSE52513. Homo sapiens. 119 samples. Type: Expression profiling by RT-PCR.
caArray_willm-00090: Gene Expression Profiling Reveals Novel Genes for Improved Risk Classification and Outcome Prediction in Pediatric Acute Lymphoblastic Leukemia: Identification, Cloning, and Valid
GEO Series GSE92708. Homo sapiens. 254 samples. Type: Expression profiling by array.
Analysis of microRNA expression profiles and prediction of target gene signaling pathways in familial hypertrophic cardiomyopathy with myosin-binding protein C3 (MYBPC3) gene mutations
GEO Series GSE150078. Homo sapiens. 6 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Data from: The FlbA-regulated predicted transcription factor rpnR of Aspergillus niger is involved in stress resistance and protein secretion, in Regulators Controlled by the Sporulation Gene flbA of Aspergillus niger (Ph.D. thesis)
Open the record for dataset details and reuse information.
Disrupting ß-catenin dependent Wnt signaling activates an invasive gene program predictive of colon cancer progression
GEO Series GSE130236. Homo sapiens; Mus musculus. 21 samples. Type: Expression profiling by high throughput sequencing.
Application of machine learning (ML) / deep learning (DL) using multiple epigenetic features reveals H3K27Ac as driver of gene expression prediction across patients with glioblastoma [ChIP-Seq]
GEO Series GSE296944. Homo sapiens. 7 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Gene expression-based, molecular pathomechanism prediction for GNE myopathy II
GEO Series GSE95149. Mus musculus. 15 samples. Type: Expression profiling by array.
An alpha-enolase (ENO1) related gene signature predicts prognosis risk and therapeutic response in diffuse large B-cell lymphoma
GEO Series GSE292371. Homo sapiens. 4 samples. Type: Other.
Transcriptome analysis of Newly Diagnosed Type 2 Diabetes Subjects identifies genes to predict Metformin drug Response
GEO Series GSE153315. Homo sapiens. 30 samples. Type: Expression profiling by high throughput sequencing.
Gene and protein sequence features augment HLA class I ligand predictions.
GEO Series GSE211000. Homo sapiens. 12 samples. Type: Other; Expression profiling by high throughput sequencing.
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.