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Transcriptome analysis of long non-coding RNAs in Mycobacterium avium complex--infected macrophages.
- Published in:
- Frontiers in Immunology, 2024, p. 01, doi. 10.3389/fimmu.2024.1374437
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- Article
A small molecule iCDM-34 identified by in silico screening suppresses HBV DNA through activation of aryl hydrocarbon receptor.
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- Cell Death Discovery, 2023, v. 9, n. 1, p. 1, doi. 10.1038/s41420-023-01755-w
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- Article
A dataset of definitive endoderm and hepatocyte differentiations from human induced pluripotent stem cells.
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- Scientific Data, 2023, v. 10, n. 1, p. 1, doi. 10.1038/s41597-023-02001-9
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- Article
xcore: an R package for inference of gene expression regulators.
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- BMC Bioinformatics, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s12859-022-05084-0
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- Article
Lyl1-deficiency promotes inflammatory responses and increases mycobacterial burden in response to Mycobacterium tuberculosis infection in mice.
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- Frontiers in Immunology, 2022, v. 13, p. 1, doi. 10.3389/fimmu.2022.948047
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- Article
GATA6 is predicted to regulate DNA methylation in an in vitro model of human hepatocyte differentiation.
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- Communications Biology, 2022, v. 5, n. 1, p. 1, doi. 10.1038/s42003-022-03365-1
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- Article
Prediction of transcription factors associated with DNA demethylation during human cellular development.
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- Chromosome Research, 2022, v. 30, n. 1, p. 109, doi. 10.1007/s10577-022-09685-6
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- Article
Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
- Published in:
- 2022
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- Correction Notice
IL-4i1 Regulation of Immune Protection During Mycobacterium tuberculosis Infection.
- Published in:
- 2021
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- Publication type:
- journal article
Evaluation of Berberine as an Adjunct to TB Treatment.
- Published in:
- Frontiers in Immunology, 2021, v. 12, p. 1, doi. 10.3389/fimmu.2021.656419
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- Article
The choice of negative control antisense oligonucleotides dramatically impacts downstream analysis depending on the cellular background.
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- BMC Genomic Data, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12863-021-00992-1
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- Article
Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
- Published in:
- Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-23143-7
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- Article
Deep phenotyping of myalgic encephalomyelitis/chronic fatigue syndrome in Japanese population.
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- Scientific Reports, 2020, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41598-020-77105-y
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- Publication type:
- Article
Combinatorial perturbation analysis reveals divergent regulations of mesenchymal genes during epithelial-to-mesenchymal transition.
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- NPJ Systems Biology & Applications, 2019, v. 5, n. 1, p. N.PAG, doi. 10.1038/s41540-019-0097-0
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- Publication type:
- Article
An interferon-like small chemical compound CDM-3008 suppresses hepatitis B virus through induction of interferon-stimulated genes.
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- PLoS ONE, 2019, v. 14, n. 6, p. 1, doi. 10.1371/journal.pone.0216139
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- Publication type:
- Article
OVOL2 induces mesenchymal-to-epithelial transition in fibroblasts and enhances cell-state reprogramming towards epithelial lineages.
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- Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-43021-z
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- Publication type:
- Article
Transcriptionally induced enhancers in the macrophage immune response to Mycobacterium tuberculosis infection.
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- BMC Genomics, 2019, v. 20, n. 1, p. 1, doi. 10.1186/s12864-019-5450-6
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- Publication type:
- Article
C1 CAGE detects transcription start sites and enhancer activity at single-cell resolution.
- Published in:
- Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-018-08126-5
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- Publication type:
- Article
A screening system to identify transcription factors that induce binding site-directed DNA demethylation.
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- Epigenetics & Chromatin, 2017, v. 10, p. 1, doi. 10.1186/s13072-017-0169-6
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- Publication type:
- Article
Genome-scale regression analysis reveals a linear relationship for promoters and enhancers after combinatorial drug treatment.
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- Bioinformatics, 2017, v. 33, n. 23, p. 3696, doi. 10.1093/bioinformatics/btx503
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- Publication type:
- Article
Genome-wide profiling of transcribed enhancers during macrophage activation.
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- Epigenetics & Chromatin, 2017, v. 10, p. 1, doi. 10.1186/s13072-017-0158-9
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- Publication type:
- Article
RUNX1 induces DNA replication independent of active DNA demethylation at SPI1 regulatory regions.
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- BMC Molecular Biology, 2017, v. 18, p. 1, doi. 10.1186/s12867-017-0087-y
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- Publication type:
- Article
Loss of variation of state detected in soybean metabolic and human myelomonocytic leukaemia cell transcriptional networks under external stimuli.
- Published in:
- Scientific Reports, 2016, p. 35946, doi. 10.1038/srep35946
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- Article
Asymmetric Regulation of Peripheral Genes by Two Transcriptional Regulatory Networks.
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- PLoS ONE, 2016, v. 11, n. 8, p. 1, doi. 10.1371/journal.pone.0160459
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- Publication type:
- Article
IRNdb: the database of immunologically relevant non-coding RNAs.
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- Database: The Journal of Biological Databases & Curation, 2016, v. 2016, p. 1, doi. 10.1093/database/baw138
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- Publication type:
- Article
Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line.
- Published in:
- Frontiers in Genetics, 2015, v. 6, p. 1, doi. 10.3389/fgene.2015.00331
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- Publication type:
- Article
Redefining the transcriptional regulatory dynamics of classically and alternatively activated macrophages by deepCAGE transcriptomics.
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- Nucleic Acids Research, 2015, v. 43, n. 14, p. 6969, doi. 10.1093/nar/gkv646
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- Publication type:
- Article
IL-4Rα-Dependent Alternative Activation of Macrophages Is Not Decisive for Mycobacterium tuberculosis Pathology and Bacterial Burden in Mice.
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- PLoS ONE, 2015, v. 10, n. 3, p. 1, doi. 10.1371/journal.pone.0121070
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- Publication type:
- Article
System-wide analysis of the transcriptional network of human myelomonocytic leukemia cells predicts attractor structure and phorbol-ester-induced differentiation and dedifferentiation transitions.
- Published in:
- Scientific Reports, 2015, p. 8283, doi. 10.1038/srep08283
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- Publication type:
- Article
A transient disruption of fibroblastic transcriptional regulatory network facilitates trans-differentiation.
- Published in:
- Nucleic Acids Research, 2014, v. 42, n. 14, p. 8905
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- Publication type:
- Article
CCL2 enhances pluripotency of human induced pluripotent stem cells by activating hypoxia related genes.
- Published in:
- Scientific Reports, 2014, p. 1, doi. 10.1038/srep05228
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- Article
Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance.
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- Nature Genetics, 2014, v. 46, n. 6, p. 558, doi. 10.1038/ng.2965
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- Publication type:
- Article
Statin Therapy Reduces the Mycobacterium tuberculosis Burden in Human Macrophages and in Mice by Enhancing Autophagy and Phagosome Maturation.
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- Journal of Infectious Diseases, 2014, v. 209, n. 5, p. 754, doi. 10.1093/infdis/jit550
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- Publication type:
- Article
Temporal dynamics and transcriptional control using single-cell gene expression analysis.
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- Genome Biology, 2013, v. 14, n. 10, p. 1, doi. 10.1186/gb-2013-14-10-r118
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- Publication type:
- Article
Simvastatin Enhances Protection against <i>Listeria monocytogenes</i> Infection in Mice by Counteracting <i>Listeria</i>-Induced Phagosomal Escape.
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- PLoS ONE, 2013, v. 8, n. 9, p. 1, doi. 10.1371/journal.pone.0075490
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- Publication type:
- Article
Establishment of single-cell screening system for the rapid identification of transcriptional modulators involved in direct cell reprogramming.
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- Nucleic Acids Research, 2012, v. 40, n. 21, p. e165, doi. 10.1093/nar/gks732
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- Publication type:
- Article
Reconstruction of Monocyte Transcriptional Regulatory Network Accompanies Monocytic Functions in Human Fibroblasts.
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- PLoS ONE, 2012, v. 7, n. 3, p. 1, doi. 10.1371/journal.pone.0033474
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- Article
LRRN4 and UPK3B Are Markers of Primary Mesothelial Cells.
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- PLoS ONE, 2011, v. 6, n. 10, p. 1, doi. 10.1371/journal.pone.0025391
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- Article
Nuclear Pore Complex Protein Mediated Nuclear Localization of Dicer Protein in Human Cells.
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- PLoS ONE, 2011, v. 6, n. 8, p. 1, doi. 10.1371/journal.pone.0023385
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- Publication type:
- Article
CC Chemokine Ligand 2 and Leukemia Inhibitory Factor Cooperatively Promote Pluripotency in Mouse Induced Pluripotent Cells.
- Published in:
- Stem Cells, 2011, v. 29, n. 8, p. 1196, doi. 10.1002/stem.673
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- Publication type:
- Article
Two-step cleavage of hairpin RNA with 5' overhangs by human DICER.
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- BMC Molecular Biology, 2011, v. 12, n. 1, p. 1, doi. 10.1186/1471-2199-12-6
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- Publication type:
- Article
Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation.
- Published in:
- Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D856, doi. 10.1093/nar/gkq1112
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- Publication type:
- Article
Two-step cleavage of hairpin RNA with 5' overhangs by human DICER.
- Published in:
- BMC Molecular Biology, 2011, v. 12, n. 1, p. 6, doi. 10.1186/1471-2199-12-6
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- Publication type:
- Article
Building promoter aware transcriptional regulatory networks using siRNA perturbation and deepCAGE.
- Published in:
- Nucleic Acids Research, 2010, v. 38, n. 22, p. 8141, doi. 10.1093/nar/gkq729
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- Publication type:
- Article
Core promoter structure and genomic context reflect histone 3 lysine 9 acetylation patterns.
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- BMC Genomics, 2010, v. 11, p. 257, doi. 10.1186/1471-2164-11-257
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- Publication type:
- Article
Nanoscale elongating control of the self‐assembled protein filament with the cysteine‐introduced building blocks.
- Published in:
- Protein Science: A Publication of the Protein Society, 2009, v. 18, n. 7, p. 1571, doi. 10.1002/pro.161
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- Publication type:
- Article
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.
- Published in:
- Nature Genetics, 2009, v. 41, n. 5, p. 553, doi. 10.1038/ng.375
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- Publication type:
- Article
The regulated retrotransposon transcriptome of mammalian cells.
- Published in:
- Nature Genetics, 2009, v. 41, n. 5, p. 563, doi. 10.1038/ng.368
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- Publication type:
- Article
Nanoscale elongating control of the self-assembled protein filament with the cysteine-introduced building blocks.
- Published in:
- Protein Science: A Publication of the Protein Society, 2009, v. 18, n. 5, p. 960, doi. 10.1002/pro.106
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- Publication type:
- Article
Data-driven normalization strategies for high-throughput quantitative RT-PCR.
- Published in:
- BMC Bioinformatics, 2009, v. 10, p. 1, doi. 10.1186/1471-2105-10-110
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- Publication type:
- Article