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Identification of Differentially Expressed Genes in Different Glioblastoma Regions and Their Association with Cancer Stem Cell Development and Temozolomide Response.
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- Journal of Personalized Medicine, 2021, v. 11, n. 11, p. 1047, doi. 10.3390/jpm11111047
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UbiSite: incorporating two-layered machine learning method with substrate motifs to predict ubiquitin-conjugation site on lysines.
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- BMC Systems Biology, 2016, v. 10, p. 49, doi. 10.1186/s12918-015-0246-z
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A new scheme to discover functional associations and regulatory networks of E3 ubiquitin ligases.
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- BMC Systems Biology, 2016, v. 10, p. 27, doi. 10.1186/s12918-015-0244-1
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- Article
Accelerating the Discovery of Anticancer Peptides through Deep Forest Architecture with Deep Graphical Representation.
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- International Journal of Molecular Sciences, 2023, v. 24, n. 5, p. 4328, doi. 10.3390/ijms24054328
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Towards Accurate Identification of Antibiotic-Resistant Pathogens through the Ensemble of Multiple Preprocessing Methods Based on MALDI-TOF Spectra.
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- International Journal of Molecular Sciences, 2023, v. 24, n. 2, p. 998, doi. 10.3390/ijms24020998
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Application of Computational Biology and Artificial Intelligence in Drug Design.
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- International Journal of Molecular Sciences, 2022, v. 23, n. 21, p. 13568, doi. 10.3390/ijms232113568
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Revealing the Immune Heterogeneity between Systemic Lupus Erythematosus and Rheumatoid Arthritis Based on Multi-Omics Data Analysis.
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- International Journal of Molecular Sciences, 2022, v. 23, n. 9, p. 5166, doi. 10.3390/ijms23095166
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Characterization and Identification of Natural Antimicrobial Peptides on Different Organisms.
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- International Journal of Molecular Sciences, 2020, v. 21, n. 3, p. 986, doi. 10.3390/ijms21030986
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Poly-γ-glutamic Acid Synthesis, Gene Regulation, Phylogenetic Relationships, and Role in Fermentation.
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- International Journal of Molecular Sciences, 2017, v. 18, n. 12, p. 2644, doi. 10.3390/ijms18122644
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Investigation and identification of protein carbonylation sites based on position-specific amino acid composition and physicochemical features.
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- BMC Bioinformatics, 2017, v. 18, p. 125, doi. 10.1186/s12859-017-1472-8
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Assessing Non-Specific Neck Pain through Pose Estimation from Images Based on Ensemble Learning.
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- Life (2075-1729), 2023, v. 13, n. 12, p. 2292, doi. 10.3390/life13122292
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dbPTM in 2019: exploring disease association and cross-talk of post-translational modifications.
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- Nucleic Acids Research, 2019, v. 47, n. D1, p. D298, doi. 10.1093/nar/gky1074
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PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants.
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- Nucleic Acids Research, 2019, v. 47, n. D1, p. D1155, doi. 10.1093/nar/gky1081
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dbAMP: an integrated resource for exploring antimicrobial peptides with functional activities and physicochemical properties on transcriptome and proteome data.
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- Nucleic Acids Research, 2019, v. 47, n. D1, p. D285, doi. 10.1093/nar/gky1030
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dbPTM 2016: 10-year anniversary of a resource for post-translational modification of proteins.
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- Nucleic Acids Research, 2016, v. 44, p. D435, doi. 10.1093/nar/gkv1240
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- Article
PlantPAN 2.0: an update of plant promoter analysis navigator for reconstructing transcriptional regulatory networks in plants.
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- Nucleic Acids Research, 2016, v. 44, n. 1, p. D1154, doi. 10.1093/nar/gkv1035
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dbSNO 2.0: a resource for exploring structural environment, functional and disease association and regulatory network of protein S-nitrosylation.
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- Nucleic Acids Research, 2015, v. 43, n. D1, p. D503, doi. 10.1093/nar/gku1176
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- Article
topPTM: a new module of dbPTM for identifying functional post-translational modifications in transmembrane proteins.
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- Nucleic Acids Research, 2014, v. 42, n. D1, p. D537, doi. 10.1093/nar/gkt1221
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dbPTM 3.0: an informative resource for investigating substrate site specificity and functional association of protein post-translational modifications.
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- Nucleic Acids Research, 2013, v. 41, p. D295, doi. 10.1093/nar/gks1229
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Identifying transcriptional start sites of human microRNAs based on high-throughput sequencing data.
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- Nucleic Acids Research, 2011, v. 39, n. 21, p. 9345, doi. 10.1093/nar/gkr604
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- Article
RegPhos: a system to explore the protein kinase–substrate phosphorylation network in humans.
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- Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D777, doi. 10.1093/nar/gkq970
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- Article
KinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns.
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- Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W588, doi. 10.1093/nar/gkm322
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- Article
Integrating transformer and imbalanced multi-label learning to identify antimicrobial peptides and their functional activities.
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- Bioinformatics, 2022, v. 38, n. 24, p. 5368, doi. 10.1093/bioinformatics/btac711
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- Article
Rapid Antibiotic Resistance Serial Prediction in Staphylococcus aureus Based on Large-Scale MALDI-TOF Data by Applying XGBoost in Multi-Label Learning.
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- Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.853775
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Large-Scale Samples Based Rapid Detection of Ciprofloxacin Resistance in Klebsiella pneumoniae Using Machine Learning Methods.
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- Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.827451
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- Article
MDRSA: A Web Based-Tool for Rapid Identification of Multidrug Resistant Staphylococcus aureus Based on Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry.
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- Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.766206
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- Article
GSHSite: Exploiting an Iteratively Statistical Method to Identify S-Glutathionylation Sites with Substrate Specificity.
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- PLoS ONE, 2015, v. 10, n. 4, p. 1, doi. 10.1371/journal.pone.0118752
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Identifying Protein Phosphorylation Sites with Kinase Substrate Specificity on Human Viruses.
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- PLoS ONE, 2012, v. 7, n. 7, p. 1, doi. 10.1371/journal.pone.0040694
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Incorporating Evolutionary Information and Functional Domains for Identifying RNA Splicing Factors in Humans.
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- PLoS ONE, 2011, v. 6, n. 11, p. 1, doi. 10.1371/journal.pone.0027567
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- Article
SNOSite: Exploiting Maximal Dependence Decomposition to Identify Cysteine S-Nitrosylation with Substrate Site Specificity.
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- PLoS ONE, 2011, v. 6, n. 7, p. 1, doi. 10.1371/journal.pone.0021849
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- Article
Incorporating Distant Sequence Features and Radial Basis Function Networks to Identify Ubiquitin Conjugation Sites.
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- PLoS ONE, 2011, v. 6, n. 3, p. 1, doi. 10.1371/journal.pone.0017331
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SOHSite: incorporating evolutionary information and physicochemical properties to identify protein S-sulfenylation sites.
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- BMC Genomics, 2016, v. 17, p. 59, doi. 10.1186/s12864-015-2299-1
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- Article
Biomarker Identification through Multiomics Data Analysis of Prostate Cancer Prognostication Using a Deep Learning Model and Similarity Network Fusion.
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- Cancers, 2021, v. 13, n. 11, p. 2528, doi. 10.3390/cancers13112528
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UbiNet 2.0: a verified, classified, annotated and updated database of E3 ubiquitin ligase–substrate interactions.
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- Database: The Journal of Biological Databases & Curation, 2021, v. 2021, p. 1, doi. 10.1093/database/baab010
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- Article
UbiNet: an online resource for exploring the functional associations and regulatory networks of protein ubiquitylation.
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- Database: The Journal of Biological Databases & Curation, 2016, v. 2016, p. 1, doi. 10.1093/database/baw054
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- Article
RegPhos 2.0: an updated resource to explore protein kinase–substrate phosphorylation networks in mammals.
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- Database: The Journal of Biological Databases & Curation, 2014, v. 2014, p. 1, doi. 10.1093/database/bau034
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- Article
Investigation and identification of functional post-translational modification sites associated with drug binding and protein-protein interactions.
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- BMC Systems Biology, 2017, v. 11, p. 69, doi. 10.1186/s12918-017-0506-1
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- Article
MDD-carb: a combinatorial model for the identification of protein carbonylation sites with substrate motifs.
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- BMC Systems Biology, 2017, v. 11, p. 127, doi. 10.1186/s12918-017-0511-4
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- Article
Identification of natural antimicrobial peptides from bacteria through metagenomic and metatranscriptomic analysis of high-throughput transcriptome data of Taiwanese oolong teas.
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- BMC Systems Biology, 2017, v. 11, p. 29, doi. 10.1186/s12918-017-0503-4
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- Article
Gene expression profiling identifies candidate biomarkers for active and latent tuberculosis.
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- BMC Bioinformatics, 2016, v. 17, p. 27, doi. 10.1186/s12859-015-0848-x
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- Article
A two-layered machine learning method to identify protein O-GlcNAcylation sites with OGlcNAc transferase substrate motifs.
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- BMC Bioinformatics, 2015, v. 16, p. 1, doi. 10.1186/1471-2105-16-S18-S10
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- Article
Characterization and identification of ubiquitin conjugation sites with E3 ligase recognition specificities.
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- BMC Bioinformatics, 2015, v. 16, p. S1, doi. 10.1186/1471-2105-16-S1-S1
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- Article
ViralmiR: a support-vector-machine-based method for predicting viral microRNA precursors.
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- BMC Bioinformatics, 2015, v. 16, p. 1, doi. 10.1186/1471-2105-16-S1-S9
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- Article
An interpretable rule-based diagnostic classification of diabetic nephropathy among type 2 diabetes patients.
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- BMC Bioinformatics, 2015, v. 16, p. 1, doi. 10.1186/1471-2105-16-S1-S5
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- Article
Characterization and identification of protein O-GlcNAcylation sites with substrate specificity.
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- BMC Bioinformatics, 2014, v. 15, n. Suppl 16, p. 1, doi. 10.1186/1471-2105-15-S16-S1
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- Article
Incorporating substrate sequence motifs and spatial amino acid composition to identify kinase-specific phosphorylation sites on protein three-dimensional structures.
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- BMC Bioinformatics, 2013, v. 14, n. Suppl 16, p. 1, doi. 10.1186/1471-2105-14-S16-S2
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- Article
ViralPhos: incorporating a recursively statistical method to predict phosphorylation sites on virus proteins.
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- BMC Bioinformatics, 2013, v. 14, n. Suppl 16, p. 1, doi. 10.1186/1471-2105-14-S16-S10
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- Article
Investigation and identification of protein γ-glutamyl carboxylation sites.
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- BMC Bioinformatics, 2011, v. 12, n. Suppl 13, p. 1, doi. 10.1186/1471-2105-12-S13-S10
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- Article
PlantPhos: using maximal dependence decomposition to identify plant phosphorylation sites with substrate site specificity.
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- BMC Bioinformatics, 2011, v. 12, n. 1, p. 261, doi. 10.1186/1471-2105-12-261
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- Article
Incorporating significant amino acid pairs to identify O-linked glycosylation sites on transmembrane proteins and nontransmembrane proteins.
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- BMC Bioinformatics, 2010, v. 11, p. 536, doi. 10.1186/1471-2105-11-536
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- Article