RNA Bioinformatics

Advanced Design of Structural RNAs Using RNARedPrint.- Modeling and Predicting RNA Three-Dimensional Structures.- Motif Discovery from CLIP Experiments.- Profiling of RNA Structure at Single-Nucleotide Resolution Using nextPARS.- RNA Framework for Assaying the Structure of RNAs by High-Throughput Sequencing.- Using RNentropy to Detect Significant Variation in Gene Expression across Multiple RNA-Seq or Single Cell RNA-Seq Samples.- Statistical Modeling of High Dimensional Counts.- QuickIsoSeq for Isoform Quantification in Large-Scale RNA Sequencing.- Summarizing RNA-Seq Data or Differentially Expressed Genes Using Gene Set, Network or Pathway Analysis.- Computational Analysis of circRNA Expression Data.- Differential Expression Analysis of Long Non-Coding RNAs.- Micro-RNA Quantification, Target Gene Identification, and Pathway Analysis.- In Silico Analysis of MicroRNA Sequencing Data.- RNA Editing Detection in HPC Infrastructures.- Identification of Genes Post-Transcriptionally Regulated from RNA-Seq: The Case Study of Liver Hepatocellular Carcinoma.- Computational Analysis of Single Cell RNA-Seq Data.- Normalization of Single-Cell RNA-Seq Data.- Dimensionality Reduction of Single-Cell RNA-Seq Data.- Single-Cell RNA Sequencing Analysis: A Step-by-Step Overview.- RNA-Seq Data Analysis in Galaxy.- RAP: A Web Tool for RNA-Seq Data Analysis.- iDEP Web Application for RNA-Seq Data Analysis.- Exploring Non-Invasive Biomarkers with the miRandola Database: A Tool for Translational Medicine.- Database Resources for Functional Circular RNAs.- Databases for RNA Editing Collections.- MODOMICS: An Operational Guide to the Use of the RNA Modification Pathways Database.- MeT-DB V2.0: Elucidating Context-Specific Functions of N6-Methyl-Adenosine Methyltranscriptome.- WHISTLE: A Functionally Annotated High-Accuracy Map of Human m6A Epitranscriptome.- Transcript Identification through Long-Read Sequencing.- Transcript Isoform-Specific Estimation of Poly(A)Tail Length by Nanopore Sequencing of Native RNA.- Nanopore RNA Sequencing Analysis.