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The response to influenza vaccination is associated with DNA methylation-driven regulation of T cell innate antiviral pathways.
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- Clinical Epigenetics, 2024, v. 16, n. 1, p. 1, doi. 10.1186/s13148-024-01730-x
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- Article
Creation and validation of the first infinium DNA methylation array for the human imprintome.
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- Epigenetics Communications, 2024, v. 4, n. 1, p. 1, doi. 10.1186/s43682-024-00028-6
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- Article
mLiftOver: harmonizing data across Infinium DNA methylation platforms.
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- Bioinformatics, 2024, v. 40, n. 7, p. 1, doi. 10.1093/bioinformatics/btae423
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- Article
Low-input and single-cell methods for Infinium DNA methylation BeadChips.
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- Nucleic Acids Research, 2024, v. 52, n. 7, p. e38, doi. 10.1093/nar/gkae127
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- Article
BISCUIT: an efficient, standards-compliant tool suite for simultaneous genetic and epigenetic inference in bulk and single-cell studies.
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- Nucleic Acids Research, 2024, v. 52, n. 6, p. e32, doi. 10.1093/nar/gkae097
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- Article
A signal processing and deep learning framework for methylation detection using Oxford Nanopore sequencing.
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- Nature Communications, 2024, v. 15, p. 1, doi. 10.1038/s41467-024-45778-y
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- Article
A signal processing and deep learning framework for methylation detection using Oxford Nanopore sequencing.
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- Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-45778-y
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- Article
Dupsifter: a lightweight duplicate marking tool for whole genome bisulfite sequencing.
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- Bioinformatics, 2023, v. 39, n. 12, p. 1, doi. 10.1093/bioinformatics/btad729
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- Article
Comprehensive evaluation of the Infinium human MethylationEPIC v2 BeadChip.
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- Epigenetics Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1186/s43682-023-00021-5
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- Article
PyComplexHeatmap: A Python package to visualize multimodal genomics data.
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- iMeta, 2023, v. 2, n. 3, p. 1, doi. 10.1002/imt2.115
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- Article
Comparative epigenome analysis using Infinium DNA methylation BeadChips.
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- Briefings in Bioinformatics, 2023, v. 24, n. 1, p. 1, doi. 10.1093/bib/bbac617
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- Article
Characterizing DNA methylation signatures of retinoblastoma using aqueous humor liquid biopsy.
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- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-33248-2
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- Article
A mammalian methylation array for profiling methylation levels at conserved sequences.
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- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-28355-z
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- Article
EHMT2 suppresses the variation of transcriptional switches in the mouse embryo.
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- PLoS Genetics, 2021, v. 17, n. 11, p. 1, doi. 10.1371/journal.pgen.1009908
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- Article
A B-cell developmental gene regulatory network is activated in infant AML.
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- PLoS ONE, 2021, v. 16, n. 11, p. 1, doi. 10.1371/journal.pone.0259197
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Evaluation of whole-genome DNA methylation sequencing library preparation protocols.
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- Epigenetics & Chromatin, 2021, v. 14, n. 1, p. 1, doi. 10.1186/s13072-021-00401-y
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- Article
Mimicking the Endometrial Cancer Tumor Microenvironment to Reprogram Tumor-Associated Macrophages in Disintegrable Supramolecular Gelatin Hydrogel.
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- International Journal of Nanomedicine, 2020, v. 15, p. 4625, doi. 10.2147/IJN.S252074
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- Article
Ancestry-specific predisposing germline variants in cancer.
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- Genome Medicine, 2020, v. 12, n. 1, p. 1, doi. 10.1186/s13073-020-00744-3
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- Article
SeSAMe: reducing artifactual detection of DNA methylation by Infinium BeadChips in genomic deletions.
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- Nucleic Acids Research, 2018, v. 46, n. 20, p. e123, doi. 10.1093/nar/gky691
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- Article
The genomic landscape of tuberous sclerosis complex.
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- Nature Communications, 2017, v. 8, n. 6, p. 15816, doi. 10.1038/ncomms15816
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- Article
Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes.
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- Nucleic Acids Research, 2017, v. 45, n. 4, p. 1, doi. 10.1093/nar/gkw967
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- Article
Comprehensive evaluation of extracellular small RNA isolation methods from serum in high throughput sequencing.
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- BMC Genomics, 2017, v. 18, p. 1, doi. 10.1186/s12864-016-3470-z
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- Article
Hotspot mutations delineating diverse mutational signatures and biological utilities across cancer types.
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- BMC Genomics, 2016, v. 17, p. 249, doi. 10.1186/s12864-016-2727-x
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- Article
TransVar: a multilevel variant annotator for precision genomics.
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- Nature Methods, 2015, v. 12, n. 11, p. 1002, doi. 10.1038/nmeth.3622
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- Article
ClinSeK: a targeted variant characterization framework for clinical sequencing.
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- Genome Medicine, 2015, v. 7, n. 1, p. 1, doi. 10.1186/s13073-015-0155-1
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- Article
Clinical Actionability Enhanced through Deep Targeted Sequencing of Solid Tumors.
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- Clinical Chemistry, 2015, v. 61, n. 3, p. 544, doi. 10.1373/clinchem.2014.231100
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- Article
Towards accurate characterization of clonal heterogeneity based on structural variation.
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- BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-299
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- Article
The Involvement of NADPH Oxidase-Mediated ROS in Cytokine Secretion from Macrophages Induced by Mycobacterium tuberculosis ESAT-6.
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- Inflammation, 2014, v. 37, n. 3, p. 880, doi. 10.1007/s10753-013-9808-7
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- Article
Bias from removing read duplication in ultra-deep sequencing experiments.
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- Bioinformatics, 2014, v. 30, n. 8, p. 1073, doi. 10.1093/bioinformatics/btt771
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Modeling Integrated Cellular Machinery Using Hybrid Petri-Boolean Networks.
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- PLoS Computational Biology, 2013, v. 9, n. 11, p. 1, doi. 10.1371/journal.pcbi.1003306
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Convergent evolution of modularity in metabolic networks through different community structures.
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- BMC Evolutionary Biology, 2012, v. 12, n. 1, p. 181, doi. 10.1186/1471-2148-12-181
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The strength of chemical linkage as a criterion for pruning metabolic graphs.
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- Bioinformatics, 2011, v. 27, n. 14, p. 1957, doi. 10.1093/bioinformatics/btr271
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- Article
Properties of metabolic graphs: biological organization or representation artifacts?
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- BMC Bioinformatics, 2011, v. 12, n. 1, p. 132, doi. 10.1186/1471-2105-12-132
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- Article