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Identification of factors directly linked to incident chronic obstructive pulmonary disease: A causal graph modeling study.
- Published in:
- PLoS Medicine, 2024, v. 21, n. 8, p. 1, doi. 10.1371/journal.pmed.1004444
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- Publication type:
- Article
Longitudinal multicompartment characterization of host-microbiota interactions in patients with acute respiratory failure.
- Published in:
- Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-48819-8
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- Publication type:
- Article
Lung Epithelium Releases Growth Differentiation Factor 15 in Response to Pathogen-mediated Injury.
- Published in:
- American Journal of Respiratory Cell & Molecular Biology, 2024, v. 70, n. 5, p. 379, doi. 10.1165/rcmb.2023-0429OC
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- Publication type:
- Article
Enabling the clinical application of artificial intelligence in genomics: a perspective of the AMIA Genomics and Translational Bioinformatics Workgroup.
- Published in:
- Journal of the American Medical Informatics Association, 2024, v. 31, n. 2, p. 536, doi. 10.1093/jamia/ocad211
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- Publication type:
- Article
Early Evidence of Chronic Obstructive Pulmonary Disease Obscured by Race-Specific Prediction Equations.
- Published in:
- American Journal of Respiratory & Critical Care Medicine, 2024, v. 209, n. 1, p. 59, doi. 10.1164/rccm.202303-0444OC
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- Publication type:
- Article
CellularPotts.jl: simulating multiscale cellular models in Julia.
- Published in:
- Bioinformatics, 2024, v. 40, n. 1, p. 1, doi. 10.1093/bioinformatics/btad773
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- Publication type:
- Article
LEF1 isoforms regulate cellular senescence and aging.
- Published in:
- Aging Cell, 2023, v. 22, n. 12, p. 1, doi. 10.1111/acel.14024
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- Publication type:
- Article
Transcriptional changes of the aging lung.
- Published in:
- Aging Cell, 2023, v. 22, n. 10, p. 1, doi. 10.1111/acel.13969
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- Publication type:
- Article
Integrated unbiased multiomics defines disease-independent placental clusters in common obstetrical syndromes.
- Published in:
- BMC Medicine, 2023, v. 21, n. 1, p. 1, doi. 10.1186/s12916-023-03054-8
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- Publication type:
- Article
Integrated BATF transcriptional network regulates suppressive intratumoral regulatory T cells.
- Published in:
- Science Immunology, 2023, v. 8, n. 87, p. 1, doi. 10.1126/sciimmunol.adf6717
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- Publication type:
- Article
The plasma degradome reflects later development of NASH fibrosis after liver transplant.
- Published in:
- Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-36867-x
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- Publication type:
- Article
An intrinsically interpretable neural network architecture for sequence-to-function learning.
- Published in:
- Bioinformatics, 2023, v. 39, p. i413, doi. 10.1093/bioinformatics/btad271
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- Publication type:
- Article
Early events marking lung fibroblast transition to profibrotic state in idiopathic pulmonary fibrosis.
- Published in:
- Respiratory Research, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s12931-023-02419-0
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- Publication type:
- Article
Deep neural networks with knockoff features identify nonlinear causal relations and estimate effect sizes in complex biological systems.
- Published in:
- GigaScience, 2023, v. 12, n. 1, p. 1, doi. 10.1093/gigascience/giad044
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- Publication type:
- Article
Lipidomic signatures align with inflammatory patterns and outcomes in critical illness.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-34420-4
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- Publication type:
- Article
Editorial: Advances in Mathematical and Computational Oncology.
- Published in:
- Frontiers in Physiology, 2022, p. 1, doi. 10.3389/fphys.2022.889198
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- Publication type:
- Article
Myofibroblast transcriptome indicates SFRP2hi fibroblast progenitors in systemic sclerosis skin.
- Published in:
- Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-24607-6
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- Publication type:
- Article
Human ex vivo lung perfusion: a novel model to study human lung diseases.
- Published in:
- Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-020-79434-4
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- Publication type:
- Article
Respiratory Tract Dysbiosis Is Associated with Worse Outcomes in Mechanically Ventilated Patients.
- Published in:
- 2020
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- Publication type:
- journal article
miR-1207-5p Can Contribute to Dysregulation of Inflammatory Response in COVID-19 via Targeting SARS-CoV-2 RNA.
- Published in:
- Frontiers in Cellular & Infection Microbiology, 2020, v. 10, p. N.PAG, doi. 10.3389/fcimb.2020.586592
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- Publication type:
- Article
An improvement of ComiR algorithm for microRNA target prediction by exploiting coding region sequences of mRNAs.
- Published in:
- BMC Bioinformatics, 2020, v. 21, p. N.PAG, doi. 10.1186/s12859-020-3519-5
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- Publication type:
- Article
CausalMGM: an interactive web-based causal discovery tool.
- Published in:
- Nucleic Acids Research, 2020, v. 48, n. W1, p. W597, doi. 10.1093/nar/gkaa350
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- Publication type:
- Article
Causal network perturbations for instance-specific analysis of single cell and disease samples.
- Published in:
- Bioinformatics, 2020, v. 36, n. 8, p. 2515, doi. 10.1093/bioinformatics/btz949
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- Publication type:
- Article
Expression patterns of small numbers of transcripts from functionally-related pathways predict survival in multiple cancers.
- Published in:
- 2019
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- Publication type:
- journal article
Mixed graphical models for integrative causal analysis with application to chronic lung disease diagnosis and prognosis.
- Published in:
- Bioinformatics, 2019, v. 35, n. 7, p. 1204, doi. 10.1093/bioinformatics/bty769
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- Publication type:
- Article
PARP1 rs1805407 Increases Sensitivity to PARP1 Inhibitors in Cancer Cells Suggesting an Improved Therapeutic Strategy.
- Published in:
- Scientific Reports, 2019, v. 9, n. 1, p. 1, doi. 10.1038/s41598-019-39542-2
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- Publication type:
- Article
ECCB 2018: The 17th European Conference on Computational Biology.
- Published in:
- 2018
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- Publication type:
- Proceeding
piMGM: incorporating multi-source priors in mixed graphical models for learning disease networks.
- Published in:
- Bioinformatics, 2018, v. 34, n. 17, p. i848, doi. 10.1093/bioinformatics/bty591
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- Publication type:
- Article
Respiratory Microbiome Profiling for Etiologic Diagnosis of Pneumonia in Mechanically Ventilated Patients.
- Published in:
- Frontiers in Microbiology, 2018, p. N.PAG, doi. 10.3389/fmicb.2018.01413
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- Publication type:
- Article
Ribosomopathy-like properties of murine and human cancers.
- Published in:
- PLoS ONE, 2017, v. 12, n. 8, p. 1, doi. 10.1371/journal.pone.0182705
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- Publication type:
- Article
Non-coding single nucleotide variants affecting estrogen receptor binding and activity.
- Published in:
- Genome Medicine, 2016, v. 8, p. 1, doi. 10.1186/s13073-016-0382-0
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- Publication type:
- Article
Learning mixed graphical models with separate sparsity parameters and stabilitybased model selection.
- Published in:
- BMC Bioinformatics, 2016, v. 17, p. 307, doi. 10.1186/s12859-016-1039-0
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- Publication type:
- Article
The center for causal discovery of biomedical knowledge from big data.
- Published in:
- 2015
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- Publication type:
- journal article
MicroRNA expression profiling predicts clinical outcome of carboplatin/paclitaxel-based therapy in metastatic melanoma treated on the ECOG-ACRIN trial E2603.
- Published in:
- Clinical Epigenetics, 2015, v. 7, n. 1, p. 1, doi. 10.1186/s13148-015-0092-2
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- Publication type:
- Article
Estrogen represses gene expression through reconfiguring chromatin structures.
- Published in:
- Nucleic Acids Research, 2013, v. 41, n. 17, p. 8061, doi. 10.1093/nar/gkt586
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- Publication type:
- Article
ComiR: combinatorial microRNA target prediction tool.
- Published in:
- Nucleic Acids Research, 2013, v. 41, p. W159, doi. 10.1093/nar/gkt379
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- Publication type:
- Article
Expression of Regulatory Platelet MicroRNAs in Patients with Sickle Cell Disease.
- Published in:
- PLoS ONE, 2013, v. 8, n. 4, p. 1, doi. 10.1371/journal.pone.0060932
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- Publication type:
- Article
Profibrotic Role of miR-154 in Pulmonary Fibrosis.
- Published in:
- American Journal of Respiratory Cell & Molecular Biology, 2012, v. 47, n. 6, p. 879, doi. 10.1165/rcmb.2011-0377OC
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- Publication type:
- Article
Novel Modeling of Combinatorial miRNA Targeting Identifies SNP with Potential Role in Bone Density.
- Published in:
- PLoS Computational Biology, 2012, v. 8, n. 12, p. 1, doi. 10.1371/journal.pcbi.1002830
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- Publication type:
- Article
RNA Deep Sequencing Reveals Differential MicroRNA Expression during Development of Sea Urchin and Sea Star.
- Published in:
- PLoS ONE, 2011, v. 6, n. 12, p. 1, doi. 10.1371/journal.pone.0029217
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- Publication type:
- Article
mirConnX: condition-specific mRNA-microRNA network integrator.
- Published in:
- Nucleic Acids Research, 2011, v. 39, n. suppl_2, p. W416, doi. 10.1093/nar/gkr276
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- Publication type:
- Article
Large Scale Comparison of Innate Responses to Viral and Bacterial Pathogens in Mouse and Macaque.
- Published in:
- PLoS ONE, 2011, v. 6, n. 7, p. 1, doi. 10.1371/journal.pone.0022401
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- Publication type:
- Article
Finding subtypes of transcription factor motif pairs with distinct regulatory roles.
- Published in:
- Nucleic Acids Research, 2011, v. 39, n. 11, p. e76, doi. 10.1093/nar/gkr205
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- Publication type:
- Article
High Throughput Determination of TGFβ1/SMAD3 Targets in A549 Lung Epithelial Cells.
- Published in:
- PLoS ONE, 2011, v. 6, n. 5, p. 1, doi. 10.1371/journal.pone.0020319
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- Publication type:
- Article
Electrostatic hot spot on DNA-binding domains mediates phosphate desolvation and the pre-organization of specificity determinant side chains.
- Published in:
- Nucleic Acids Research, 2010, v. 38, n. 7, p. 2134, doi. 10.1093/nar/gkp1132
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- Publication type:
- Article
Features of Mammalian microRNA Promoters Emerge from Polymerase II Chromatin Immunoprecipitation Data.
- Published in:
- PLoS ONE, 2009, v. 4, n. 4, p. 1, doi. 10.1371/journal.pone.0005279
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- Publication type:
- Article
HHMMiR: efficient de novo prediction of microRNAs using hierarchical hidden Markov models.
- Published in:
- BMC Bioinformatics, 2009, v. 10, p. 1, doi. 10.1186/1471-2105-10-S1-S35
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- Publication type:
- Article
Inferring protein DNA dependencies using motif alignments and mutual information.
- Published in:
- Bioinformatics, 2007, v. 23, n. 13, p. i297, doi. 10.1093/bioinformatics/btm215
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- Publication type:
- Article
Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences.
- Published in:
- Nature, 2007, v. 447, n. 7141, p. 167, doi. 10.1038/nature05805
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- Publication type:
- Article
DNA Familial Binding Profiles Made Easy: Comparison of Various Motif Alignment and Clustering Strategies.
- Published in:
- PLoS Computational Biology, 2007, v. 3, n. 3, p. 0578, doi. 10.1371/journal.pcbi.0030061
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- Publication type:
- Article