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RNA secondary structural alignment with conditional random fields.
- Published in:
- Bioinformatics, 2005, v. 21, p. ii237, doi. 10.1093/bioinformatics/bti1139
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- Publication type:
- Article
Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures.
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- Bioinformatics, 2005, v. 21, n. 11, p. 2611
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- Publication type:
- Article
Automatic Detection and Measurement of Renal Cysts in Ultrasound Images: A Deep Learning Approach.
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- Healthcare (2227-9032), 2023, v. 11, n. 4, p. 484, doi. 10.3390/healthcare11040484
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- Publication type:
- Article
Resequencing of the common marmoset genome improves genome assemblies and gene-coding sequence analysis.
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- Scientific Reports, 2015, p. 16894, doi. 10.1038/srep16894
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- Publication type:
- Article
DEclust: A statistical approach for obtaining differential expression profiles of multiple conditions.
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- PLoS ONE, 2017, v. 12, n. 11, p. 1, doi. 10.1371/journal.pone.0188285
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- Publication type:
- Article
MetaVelvet-DL: a MetaVelvet deep learning extension for de novo metagenome assembly.
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- BMC Bioinformatics, 2021, v. 22, n. 6, p. 1, doi. 10.1186/s12859-020-03737-6
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- Publication type:
- Article
Foreword.
- Published in:
- 2012
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- Publication type:
- Editorial
Operon structure optimization by random self-assembly.
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- Natural Computing, 2010, v. 9, n. 1, p. 173, doi. 10.1007/s11047-009-9141-0
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- Publication type:
- Article
A Bicyclic 1-Deoxygalactonojirimycin Derivative as a Novel Pharmacological Chaperone for GM<sub>1</sub> Gangliosidosis.
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- Molecular Therapy, 2013, v. 21, n. 3, p. 526, doi. 10.1038/mt.2012.263
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- Publication type:
- Article
Time-Series Analysis of Tumorigenesis in a Murine Skin Carcinogenesis Model.
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- Scientific Reports, 2018, v. 8, n. 1, p. 1, doi. 10.1038/s41598-018-31349-x
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- Publication type:
- Article
Deep learning of multimodal networks with topological regularization for drug repositioning.
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- Journal of Cheminformatics, 2024, v. 16, n. 1, p. 1, doi. 10.1186/s13321-024-00897-y
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- Publication type:
- Article
Construction of a genetic AND gate under a new standard for assembly of genetic parts.
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- BMC Genomics, 2010, v. 11, p. 1, doi. 10.1186/1471-2164-11-S4-S16
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- Publication type:
- Article
Whole genome assembly of a natto production strain Bacillus subtilis natto from very short read data.
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- BMC Genomics, 2010, v. 11, p. 243, doi. 10.1186/1471-2164-11-243
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- Publication type:
- Article
Comprehensive predictions of target proteins based on protein-chemical interaction using virtual screening and experimental verifications.
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- BMC Chemical Biology, 2012, v. 12, n. 1, p. 2, doi. 10.1186/1472-6769-12-2
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- Publication type:
- Article
An efficient algorithm for de novo predictions of biochemical pathways between chemical compounds.
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- BMC Bioinformatics, 2012, v. 13, n. Suppl 17, p. 1, doi. 10.1186/1471-2105-13-S17-S8
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- Publication type:
- Article
Fast and accurate clustering of noncoding RNAs using ensembles of sequence alignments and secondary structures.
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- BMC Bioinformatics, 2011, v. 12, n. Suppl 1, p. 1, doi. 10.1186/1471-2105-12-S1-S48
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- Publication type:
- Article
Robust and accurate prediction of noncoding RNAs from aligned sequences.
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- BMC Bioinformatics, 2010, v. 11, p. 1
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- Publication type:
- Article
A Comparison of Bioinformatics Pipelines for Enrichment Illumina Next Generation Sequencing Systems in Detecting SARS-CoV-2 Virus Strains.
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- Genes, 2022, v. 13, n. 8, p. 1330, doi. 10.3390/genes13081330
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- Publication type:
- Article
Chaperone Therapy for Neuronopathic Lysosomal Diseases: Competitive Inhibitors as Chemical Chaperones for Enhancement of Mutant Enzyme Activities.
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- Perspectives in Medicinal Chemistry, 2009, n. 3, p. 7, doi. 10.4137/PMC.S2332
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- Publication type:
- Article
A max-margin training of RNA secondary structure prediction integrated with the thermodynamic model.
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- Journal of Bioinformatics & Computational Biology, 2018, v. 16, n. 6, p. N.PAG, doi. 10.1142/S0219720018400255
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- Publication type:
- Article
A NON-PARAMETRIC BAYESIAN APPROACH FOR PREDICTING RNA SECONDARY STRUCTURES.
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- Journal of Bioinformatics & Computational Biology, 2010, v. 8, n. 4, p. 727, doi. 10.1142/S0219720010004926
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- Publication type:
- Article
STEM KERNELS FOR RNA SEQUENCE ANALYSES.
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- Journal of Bioinformatics & Computational Biology, 2007, v. 5, n. 5, p. 1103, doi. 10.1142/S0219720007003028
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- Publication type:
- Article
Comprehensive evaluation of non-hybrid genome assembly tools for third-generation PacBio long-read sequence data.
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- Briefings in Bioinformatics, 2019, v. 20, n. 3, p. 866, doi. 10.1093/bib/bbx147
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- Publication type:
- Article
Screening for candidate genes involved in the production of mouse subventricular zone proliferative cells and an estimation of their changes in evolutionary pressure during primate evolution.
- Published in:
- Frontiers in Neuroanatomy, 2013, v. 7, p. 1, doi. 10.3389/fnana.2013.00024
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- Publication type:
- Article
MetaVelvet-SL: an extension of the Velvet assembler to a de novo metagenomic assembler utilizing supervised learning.
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- DNA Research, 2015, v. 22, n. 1, p. 69, doi. 10.1093/dnares/dsu041
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- Publication type:
- Article
An improved de novo genome assembly of the common marmoset genome yields improved contiguity and increased mapping rates of sequence data.
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- BMC Genomics, 2020, v. 21, p. 1, doi. 10.1186/s12864-020-6657-2
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- Publication type:
- Article
Directed acyclic graph kernels for structural RNA analysis.
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- BMC Bioinformatics, 2008, v. 9, p. 1, doi. 10.1186/1471-2105-9-318
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- Publication type:
- Article
Integrating Statistical Predictions and Experimental Verifications for Enhancing Protein-Chemical Interaction Predictions in Virtual Screening.
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- PLoS Computational Biology, 2009, v. 5, n. 6, p. 1, doi. 10.1371/journal.pcbi.1000397
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- Publication type:
- Article
Convolutional neural networks for classification of alignments of non-coding RNA sequences.
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- Bioinformatics, 2018, v. 34, n. 13, p. i237, doi. 10.1093/bioinformatics/bty228
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- Publication type:
- Article
RNA secondary structure prediction using deep learning with thermodynamic integration.
- Published in:
- Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-21194-4
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- Publication type:
- Article
Whole Genome Complete Resequencing of Bacillus subtilis Natto by Combining Long Reads with High-Quality Short Reads.
- Published in:
- PLoS ONE, 2014, v. 9, n. 10, p. 1, doi. 10.1371/journal.pone.0109999
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- Publication type:
- Article
Meis1 Regulates Epidermal Stem Cells and Is Required for Skin Tumorigenesis.
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- PLoS ONE, 2014, v. 9, n. 7, p. 1, doi. 10.1371/journal.pone.0102111
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- Publication type:
- Article
Murasaki: A Fast, Parallelizable Algorithm to Find Anchors from Multiple Genomes.
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- PLoS ONE, 2010, v. 5, n. 9, p. 1, doi. 10.1371/journal.pone.0012651
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- Publication type:
- Article
Genomic style: yet another deep-learning approach to characterize bacterial genome sequences.
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- Bioinformatics Advances, 2021, v. 1, n. 1, p. 1, doi. 10.1093/bioadv/vbab039
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- Publication type:
- Article
Convolutional neural network based on SMILES representation of compounds for detecting chemical motif.
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- BMC Bioinformatics, 2018, v. 19, n. 19, p. 83, doi. 10.1186/s12859-018-2523-5
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- Publication type:
- Article
Informative RNA base embedding for RNA structural alignment and clustering by deep representation learning.
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- NAR Genomics & Bioinformatics, 2022, v. 4, n. 1, p. 1, doi. 10.1093/nargab/lqac012
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- Publication type:
- Article
Hamster PIWI proteins bind to piRNAs with stage-specific size variations during oocyte maturation.
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- Nucleic Acids Research, 2021, v. 49, n. 5, p. 2700, doi. 10.1093/nar/gkab059
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- Publication type:
- Article
MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads.
- Published in:
- Nucleic Acids Research, 2012, v. 40, n. 20, p. e155, doi. 10.1093/nar/gks678
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- Publication type:
- Article
Deep learning integration of molecular and interactome data for protein–compound interaction prediction.
- Published in:
- Journal of Cheminformatics, 2021, v. 13, n. 1, p. 1, doi. 10.1186/s13321-021-00513-3
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- Publication type:
- Article
Deep learning integration of molecular and interactome data for protein–compound interaction prediction.
- Published in:
- Journal of Cheminformatics, 2021, v. 13, n. 1, p. 1, doi. 10.1186/s13321-021-00513-3
- By:
- Publication type:
- Article
Deep learning integration of molecular and interactome data for protein–compound interaction prediction.
- Published in:
- Journal of Cheminformatics, 2021, v. 13, n. 1, p. 1, doi. 10.1186/s13321-021-00513-3
- By:
- Publication type:
- Article
PSSMTS: position specific scoring matrices on tree structures.
- Published in:
- Journal of Mathematical Biology, 2008, v. 56, n. 1/2, p. 201, doi. 10.1007/s00285-007-0108-4
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- Publication type:
- Article
SHARAKU: an algorithm for aligning and clustering read mapping profiles of deep sequencing in non-coding RNA processing.
- Published in:
- Bioinformatics, 2016, v. 32, n. 12, p. i369, doi. 10.1093/bioinformatics/btw273
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- Publication type:
- Article
DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition.
- Published in:
- Bioinformatics, 2012, v. 28, n. 24, p. 3218, doi. 10.1093/bioinformatics/bts612
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- Publication type:
- Article
SAMSCOPE: an OpenGL-based real-time interactive scale-free SAM viewer.
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- Bioinformatics, 2012, v. 28, n. 9, p. 1276, doi. 10.1093/bioinformatics/bts122
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- Publication type:
- Article
COPICAT: a software system for predicting interactions between proteins and chemical compounds.
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- Bioinformatics, 2012, v. 28, n. 5, p. 745, doi. 10.1093/bioinformatics/bts031
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- Publication type:
- Article
Accurate identification of orthologous segments among multiple genomes.
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- Bioinformatics, 2009, v. 25, n. 11, p. 1474, doi. 10.1093/bioinformatics/btp263
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- Publication type:
- Article
Accurate identification of orthologous segments among multiple genomes.
- Published in:
- Bioinformatics, 2009, v. 25, n. 7, p. 853, doi. 10.1093/bioinformatics/btp070
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- Publication type:
- Article
Statistical prediction of protein chemical interactions based on chemical structure and mass spectrometry data.
- Published in:
- Bioinformatics, 2007, v. 23, n. 15, p. 2004, doi. 10.1093/bioinformatics/btm266
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- Publication type:
- Article
Genome-wide searching with base-pairing kernel functions for noncoding RNAs: computational and expression analysis of snoRNA families in Caenorhabditis elegans.
- Published in:
- Nucleic Acids Research, 2009, v. 37, n. 3, p. 999, doi. 10.1093/nar/gkn1054
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- Publication type:
- Article