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A data‐driven genome annotation approach for cassava.
- Published in:
- Plant Journal, 2024, v. 119, n. 3, p. 1596, doi. 10.1111/tpj.16856
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- Publication type:
- Article
Pulmonary maternal immune activation does not cross the placenta but leads to fetal metabolic adaptation.
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- Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-48492-x
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- Publication type:
- Article
JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles.
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- Nucleic Acids Research, 2024, v. 52, n. D1, p. D174, doi. 10.1093/nar/gkad1059
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- Publication type:
- Article
Lactate receptor GPR81 drives breast cancer growth and invasiveness through regulation of ECM properties and Notch ligand DLL4.
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- BMC Cancer, 2023, v. 23, n. 1, p. 1, doi. 10.1186/s12885-023-11631-6
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- Publication type:
- Article
Lactate receptor GPR81 drives breast cancer growth and invasiveness through regulation of ECM properties and Notch ligand DLL4.
- Published in:
- BMC Cancer, 2023, v. 23, n. 1, p. 1, doi. 10.1186/s12885-023-11631-6
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- Publication type:
- Article
Chronic acidosis rewires cancer cell metabolism through PPARα signaling.
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- International Journal of Cancer, 2023, v. 152, n. 8, p. 1668, doi. 10.1002/ijc.34404
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- Publication type:
- Article
Crosstalk between tumor acidosis, p53 and extracellular matrix regulates pancreatic cancer aggressiveness.
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- International Journal of Cancer, 2023, v. 152, n. 6, p. 1210, doi. 10.1002/ijc.34367
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- Publication type:
- Article
Mesenchymal-epithelial crosstalk shapes intestinal regionalisation via Wnt and Shh signalling.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-28369-7
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- Publication type:
- Article
Mesenchymal-epithelial crosstalk shapes intestinal regionalisation via Wnt and Shh signalling.
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- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-28369-7
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- Publication type:
- Article
Computational identification of signals predictive for nuclear RNA exosome degradation pathway targeting.
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- NAR Genomics & Bioinformatics, 2022, v. 4, n. 3, p. 1, doi. 10.1093/nargab/lqac071
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- Publication type:
- Article
PAMP-triggered genetic reprogramming involves widespread alternative transcription initiation and an immediate transcription factor wave.
- Published in:
- Plant Cell, 2022, v. 34, n. 7, p. 2615, doi. 10.1093/plcell/koac108
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- Publication type:
- Article
Mesenchymal-epithelial crosstalk shapes intestinal regionalisation via Wnt and Shh signalling.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-28369-7
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- Publication type:
- Article
JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles.
- Published in:
- Nucleic Acids Research, 2022, v. 50, n. D1, p. D165, doi. 10.1093/nar/gkab1113
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- Publication type:
- Article
TrancriptomeReconstructoR: data-driven annotation of complex transcriptomes.
- Published in:
- BMC Bioinformatics, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12859-021-04208-2
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- Article
Publisher Correction to: TrancriptomeReconstructoR: data‑driven annotation of complex transcriptomes.
- Published in:
- 2021
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- Publication type:
- Correction Notice
TrancriptomeReconstructoR: data-driven annotation of complex transcriptomes.
- Published in:
- BMC Bioinformatics, 2021, v. 22, p. 1, doi. 10.1186/s12859-021-04208-2
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- Publication type:
- Article
The RNA exosome shapes the expression of key protein-coding genes.
- Published in:
- Nucleic Acids Research, 2020, v. 48, n. 15, p. 8509, doi. 10.1093/nar/gkaa594
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- Publication type:
- Article
Cancer Cell Acid Adaptation Gene Expression Response Is Correlated to Tumor-Specific Tissue Expression Profiles and Patient Survival.
- Published in:
- Cancers, 2020, v. 12, n. 8, p. 2183, doi. 10.3390/cancers12082183
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- Publication type:
- Article
Characterization of Arabidopsis thaliana Promoter Bidirectionality and Antisense RNAs by Inactivation of Nuclear RNA Decay Pathways.
- Published in:
- Plant Cell, 2020, v. 32, n. 6, p. 1845, doi. 10.1105/tpc.19.00815
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- Publication type:
- Article
Organismal benefits of transcription speed control at gene boundaries.
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- EMBO Reports, 2020, v. 21, n. 4, p. 1, doi. 10.15252/embr.201949315
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- Publication type:
- Article
JASPAR 2020: update of the open-access database of transcription factor binding profiles.
- Published in:
- Nucleic Acids Research, 2020, v. 48, n. D1, p. D87, doi. 10.1093/nar/gkz1001
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- Publication type:
- Article
IsoformSwitchAnalyzeR: analysis of changes in genome-wide patterns of alternative splicing and its functional consequences.
- Published in:
- Bioinformatics, 2019, v. 35, n. 21, p. 4469, doi. 10.1093/bioinformatics/btz247
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- Publication type:
- Article
CAGEfightR: analysis of 5′-end data using R/Bioconductor.
- Published in:
- BMC Bioinformatics, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s12859-019-3029-5
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- Publication type:
- Article
Comprehensive profiling of the fission yeast transcription start site activity during stress and media response.
- Published in:
- Nucleic Acids Research, 2019, v. 47, n. 4, p. 1671, doi. 10.1093/nar/gky1227
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- Publication type:
- Article
PLZF targets developmental enhancers for activation during osteogenic differentiation of human mesenchymal stem cells.
- Published in:
- eLife, 2019, p. 1, doi. 10.7554/eLife.40364
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- Publication type:
- Article
The RNA exosome contributes to gene expression regulation during stem cell differentiation.
- Published in:
- Nucleic Acids Research, 2018, v. 46, n. 21, p. 11502, doi. 10.1093/nar/gky817
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- Publication type:
- Article
Relation between NOD2 genotype and changes in innate signaling in Crohn's disease on mRNA and miRNA levels.
- Published in:
- NPJ Genomic Medicine, 2017, v. 2, n. 1, p. N.PAG, doi. 10.1038/s41525-016-0001-4
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- Publication type:
- Article
Regulation of Laminin γ2 Expression by CDX2 in Colonic Epithelial Cells Is Impaired During Active Inflammation.
- Published in:
- Journal of Cellular Biochemistry, 2017, v. 118, n. 2, p. 298, doi. 10.1002/jcb.25636
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- Publication type:
- Article
Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals.
- Published in:
- Nucleic Acids Research, 2017, v. 45, n. D1, p. D737, doi. 10.1093/nar/gkw995
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- Publication type:
- Article
Transcriptional Dynamics During Human Adipogenesis and Its Link to Adipose Morphology and Distribution.
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- Diabetes, 2017, v. 66, n. 1, p. 218, doi. 10.2337/db16-0631
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- Publication type:
- Article
Transcriptional Dynamics During Human Adipogenesis and Its Link to Adipose Morphology and Distribution.
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- 2016
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- Publication type:
- journal article
Regulating retrotransposon activity through the use of alternative transcription start sites.
- Published in:
- EMBO Reports, 2016, v. 17, n. 5, p. 753, doi. 10.15252/embr.201541866
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- Publication type:
- Article
JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles.
- Published in:
- Nucleic Acids Research, 2016, v. 44, n. 1, p. D110, doi. 10.1093/nar/gkv1176
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- Publication type:
- Article
On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase.
- Published in:
- Database: The Journal of Biological Databases & Curation, 2016, v. 2016, p. 1, doi. 10.1093/database/baw144
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- Publication type:
- Article
Remodeling of retrotransposon elements during epigenetic induction of adult visual cortical plasticity by HDAC inhibitors.
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- Epigenetics & Chromatin, 2015, v. 8, p. 1, doi. 10.1186/s13072-015-0043-3
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- Publication type:
- Article
CAGE-defined promoter regions of the genes implicated in Rett Syndrome.
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- BMC Genomics, 2014, v. 15, n. 1, p. 3494, doi. 10.1186/1471-2164-15-1177
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- Publication type:
- Article
Identification of TNF-α-Responsive Promoters and Enhancers in the Intestinal Epithelial Cell Model Caco-2.
- Published in:
- DNA Research, 2014, v. 21, n. 6, p. 569, doi. 10.1093/dnares/dsu022
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- Publication type:
- Article
Nuclear stability and transcriptional directionality separate functionally distinct RNA species.
- Published in:
- Nature Communications, 2014, v. 5, n. 11, p. 5336, doi. 10.1038/ncomms6336
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- Publication type:
- Article
Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance.
- Published in:
- Nature Genetics, 2014, v. 46, n. 6, p. 558, doi. 10.1038/ng.2965
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- Publication type:
- Article
spliceR: an R package for classification of alternative splicing and prediction of coding potential from RNA-seq data.
- Published in:
- BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-81
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- Publication type:
- Article
JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles.
- Published in:
- Nucleic Acids Research, 2014, v. 42, n. D1, p. D142, doi. 10.1093/nar/gkt997
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- Publication type:
- Article
Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality.
- Published in:
- Nature Structural & Molecular Biology, 2013, v. 20, n. 8, p. 923, doi. 10.1038/nsmb.2640
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- Publication type:
- Article
GMD: measuring the distance between histograms with applications on high-throughput sequencing reads.
- Published in:
- Bioinformatics, 2012, v. 28, n. 8, p. 1164, doi. 10.1093/bioinformatics/bts087
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- Publication type:
- Article
Metazoan promoters: emerging characteristics and insights into transcriptional regulation.
- Published in:
- Nature Reviews Genetics, 2012, v. 13, n. 4, p. 233, doi. 10.1038/nrg3163
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- Publication type:
- Article
Biogenic mechanisms and utilization of small RNAs derived from human protein-coding genes.
- Published in:
- Nature Structural & Molecular Biology, 2011, v. 18, n. 9, p. 1075, doi. 10.1038/nsmb.2091
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- Publication type:
- Article
PROMoter uPstream Transcripts share characteristics with mRNAs and are produced upstream of all three major types of mammalian promoters.
- Published in:
- Nucleic Acids Research, 2011, v. 39, n. 16, p. 7179, doi. 10.1093/nar/gkr370
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- Publication type:
- Article
Systematic Clustering of Transcription Start Site Landscapes.
- Published in:
- PLoS ONE, 2011, v. 6, n. 8, p. 1, doi. 10.1371/journal.pone.0023409
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- Publication type:
- Article
Cross species comparison of C/EBPα and PPARγ profiles in mouse and human adipocytes reveals interdependent retention of binding sites.
- Published in:
- BMC Genomics, 2011, v. 12, p. 1, doi. 10.1186/1471-2164-12-152
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- Publication type:
- Article
Cross species comparison of C/EBPa and PPARg profiles in mouse and human adipocytes reveals interdependent retention of binding sites.
- Published in:
- BMC Genomics, 2011, v. 12, n. 1, p. 152, doi. 10.1186/1471-2164-12-152
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- Publication type:
- Article
Gene expression analysis of the emergence of epileptiform activity after focal injection of kainic acid into mouse hippocampus.
- Published in:
- European Journal of Neuroscience, 2010, v. 32, n. 8, p. 1364, doi. 10.1111/j.1460-9568.2010.07403.x
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- Article