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Dual RNA-Seq analysis of SARS-CoV-2 correlates specific human transcriptional response pathways directly to viral expression.
- Published in:
- Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-05342-4
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- Publication type:
- Article
The UCSC Interaction Browser: multidimensional data views in pathway context.
- Published in:
- Nucleic Acids Research, 2013, v. 41, p. W218, doi. 10.1093/nar/gkt473
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- Publication type:
- Article
Misannotations of rRNA can now generate 90% false positive protein matches in metatranscriptomic studies.
- Published in:
- Nucleic Acids Research, 2011, v. 39, n. 20, p. 8792, doi. 10.1093/nar/gkr576
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- Publication type:
- Article
The UCSC cancer genomics browser: update 2011.
- Published in:
- Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D951, doi. 10.1093/nar/gkq1113
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- Publication type:
- Article
VisANT 3.0: new modules for pathway visualization, editing, prediction and construction.
- Published in:
- Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W625, doi. 10.1093/nar/gkm295
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- Publication type:
- Article
Towards zoomable multidimensional maps of the cell.
- Published in:
- Nature Biotechnology, 2007, v. 25, n. 5, p. 547, doi. 10.1038/nbt1304
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- Publication type:
- Article
Global optimization of somatic variant identification in cancer genomes with a global community challenge.
- Published in:
- Nature Genetics, 2014, v. 46, n. 4, p. 318, doi. 10.1038/ng.2932
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- Publication type:
- Article
Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection.
- Published in:
- Nature Methods, 2015, v. 12, n. 7, p. 623, doi. 10.1038/nmeth.3407
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- Publication type:
- Article
Prostate apoptosis response protein 4 sensitizeshuman colon cancer cells to chemotherapeutic5-FU through mediation of an NFκB and microRNAnetwork.
- Published in:
- Molecular Cancer, 2010, v. 9, p. 98, doi. 10.1186/1476-4598-9-98
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- Publication type:
- Article
RADIA: RNA and DNA Integrated Analysis for Somatic Mutation Detection.
- Published in:
- PLoS ONE, 2014, v. 9, n. 11, p. 1, doi. 10.1371/journal.pone.0111516
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- Publication type:
- Article
Computational Integration of Homolog and Pathway Gene Module Expression Reveals General Stemness Signatures.
- Published in:
- PLoS ONE, 2011, v. 6, n. 4, p. 1, doi. 10.1371/journal.pone.0018968
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- Publication type:
- Article
Molecular Signatures of Quiescent, Mobilized and Leukemia-Initiating Hematopoietic Stem Cells.
- Published in:
- PLoS ONE, 2010, v. 5, n. 1, p. 1, doi. 10.1371/journal.pone.0008785
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- Publication type:
- Article
Biological process activity transformation of single cell gene expression for cross-species alignment.
- Published in:
- Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-019-12924-w
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- Publication type:
- Article
The NIH BD2K center for big data in translational genomics.
- Published in:
- 2015
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- Publication type:
- journal article
PharmGKB: the Pharmacogenetics Knowledge Base.
- Published in:
- Nucleic Acids Research, 2002, v. 30, n. 1, p. 163, doi. 10.1093/nar/30.1.163
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- Publication type:
- Article
Revealing cancer subtypes with higher-order correlations applied to imaging and omics data.
- Published in:
- BMC Medical Genomics, 2017, v. 10, p. 1, doi. 10.1186/s12920-017-0256-3
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- Publication type:
- Article
A Factor Graph Nested Effects Model To Identify Networks from Genetic Perturbations.
- Published in:
- PLoS Computational Biology, 2009, v. 5, n. 1, p. 1, doi. 10.1371/journal.pcbi.1000274
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- Publication type:
- Article
Toward better benchmarking: challenge-based methods assessment in cancer genomics.
- Published in:
- Genome Biology, 2014, v. 15, n. 9, p. 462, doi. 10.1186/s13059-014-0462-7
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- Publication type:
- Article
Accurate cancer phenotype prediction with AKLIMATE, a stacked kernel learner integrating multimodal genomic data and pathway knowledge.
- Published in:
- PLoS Computational Biology, 2021, v. 17, n. 4, p. 1, doi. 10.1371/journal.pcbi.1008878
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- Publication type:
- Article
Chromosomal clustering of muscle-expressed genes in Caenorhabditis elegans.
- Published in:
- Nature, 2002, v. 418, n. 6901, p. 975, doi. 10.1038/nature01012
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- Publication type:
- Article
Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla.
- Published in:
- PLoS ONE, 2016, v. 11, n. 7, p. 1, doi. 10.1371/journal.pone.0155839
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- Publication type:
- Article
Pathway-Based Genomics Prediction using Generalized Elastic Net.
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- PLoS Computational Biology, 2016, v. 12, n. 3, p. 1, doi. 10.1371/journal.pcbi.1004790
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- Publication type:
- Article
Common and cell-type specific responses to anti-cancer drugs revealed by high throughput transcript profiling.
- Published in:
- Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-01383-w
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- Publication type:
- Article
Associating transcription factors to single-cell trajectories with DREAMIT.
- Published in:
- Genome Biology, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s13059-024-03368-7
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- Publication type:
- Article
Valection: design optimization for validation and verification studies.
- Published in:
- BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2391-z
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- Publication type:
- Article
Germline contamination and leakage in whole genome somatic single nucleotide variant detection.
- Published in:
- BMC Bioinformatics, 2018, v. 19, p. 1, doi. 10.1186/s12859-018-2046-0
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- Publication type:
- Article
Reproducible biomedical benchmarking in the cloud: lessons from crowd-sourced data challenges.
- Published in:
- 2019
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- Publication type:
- Letter
Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE).
- Published in:
- Bioinformatics, 2013, v. 29, n. 21, p. 2757, doi. 10.1093/bioinformatics/btt471
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- Publication type:
- Article
PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis.
- Published in:
- Bioinformatics, 2012, v. 28, n. 18, p. i640, doi. 10.1093/bioinformatics/bts402
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- Publication type:
- Article
Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM.
- Published in:
- Bioinformatics, 2010, v. 26, n. 12, p. i237, doi. 10.1093/bioinformatics/btq182
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- Publication type:
- Article
Prophetic Granger Causality to infer gene regulatory networks.
- Published in:
- PLoS ONE, 2017, v. 12, n. 12, p. 1, doi. 10.1371/journal.pone.0170340
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- Publication type:
- Article
A global analysis of genetic interactions in Caenorhabditis elegans.
- Published in:
- Journal of Biology, 2007, v. 6, p. 8.1, doi. 10.1186/jbiol58
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- Publication type:
- Article