miRNA-seq

miRNA sequencing (miRNA-seq) is a high-throughput next-generation sequencing (NGS) method specifically designed to identify and quantify microRNAs (miRNAs) in biological samples. miRNAs are small (~18-25 nucleotides), non-coding RNAs that regulate gene expression post-transcriptionally, typically by binding to target mRNAs and causing degradation or translational repression.

After sequencing, the raw miRNA data is first checked for quality and cleaned by removing adapter sequences. Then, the cleaned reads are matched to known miRNAs to identify which ones are present and count their abundance. Next, the data is normalized and compared across samples to find miRNAs that change between conditions. Optionally, new novel miRNAs can be discovered from unmatched sequences. Finally, the biological roles of key miRNAs are explored by predicting their target genes and affected pathways.

IMG
By the end of this module, learners will be able to understand and perform the key steps of miRNA sequencing data analysis, including quality control, adapter trimming, alignment to reference miRNAs, quantification, differential expression analysis, and functional interpretation of miRNA profiles.

👉 Enroll now and take the first step toward a future in data-driven biology and beyond.

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  • RNASeq [R]
  • RNASeq [D]
  • scRNA-Seq
  • lncRNA-Seq
  • miRNA-Seq
  • PSI-Seq
  • ChipSeq
  • ATAC-Seq
  • scATA-Seq
  • Spatial Transcriptome
  • DNASeq
  • MethylSeq
  • Whole Genome de novo Assembly
  • Targeted metagenomics
  • Whole Genome Metagenomics
  • Metatranscriptomics
  • RAD-Seq
  • SNAP-ChIP

Course Information
Course miRNASeq (Differential miRNA expression)
Duration online 7 Days Training [ 2 Hours Daily [ Monday To Friday ] ]

Slots

Our working Time is 9:00 AM to 6:00 PM Indian Time Available slots - 9:00 AM to 11:00 AM / 11:00 AM to 1:00 PM / 2:00 PM to 4:00 PM / 4:00 PM to 6:00 PM
For training slots after 6 PM or before 9 am as well as weekends training kindly mention during registration accordingly it will be scheduled.

Mode

👉 For online training candidate have to install ZOOM (with remote control on candidate system which makes 100% interactive)
👉 Run time video recording candidate can make as well as pdf manual will be provided for future reference.
👉 All our training is 100% practical and 100% industrial and 100% interactive which provides same as offline learning.
👉 For doubt clear there will be extra support will be provided based on the requirement.
👉 Certificate will be provided
Sequencing Platform Illumina /Ion Torrent/PacBio/Nanopore
Raw data Candidate can include maximum 4 datasets of their own during training. Publication standards figures and tables will be generated.
Training Fees
Module-NGS miRNASeq Data Analysis
    📘 Introduction to miRNAs and miRNA-seq
    - Biology of microRNAs: biogenesis, function, and importance
    - Overview of miRNA-seq technology and applications
    - Comparison with other miRNA profiling methods

    📘 Linux Basics & Environment Setup
    - Linux Command Line Basics
    - Installing Tools (FastQC, Bowtie2, R, miRDeep2, etc.)
    - Using Conda and Shell Scripting

    📘 Introduction to NGS miRNA-seq Data
    - Understanding NGS and its applications
    - Types of sequencing data generated
    - Understanding FASTQ files and sequencing quality scores
    - Common challenges in miRNA-seq data

    📘 Bioinformatics Pipeline for miRNA-seq
    - Quality control
    - Adapter trimming
    - Read alignment to miRNA databases (miRDeep2)
    - Identifying miRNAs, piRNAs, tRNAs, and other RNA types
    - miRNA quantification and count matrix generation

    📘 Differential Expression Analysis
    - R programming understanding
    - Normalization techniques
    - Using DESeq2 or edgeR for differential miRNA expression
    - Visualizing results (heatmaps, volcano plots)

    📘 Novel miRNA Discovery and IsomiR Analysis
    - Identifying novel miRNAs
    - Understanding miRNA isoforms (isomiRs) and their analysis

    📘 Functional Annotation and Target Prediction
    - Predicting miRNA target genes
    - Pathway and Gene Ontology enrichment analysis
    - Pathway Network analysis
    - StringDB and Cytoscape network analysis

Preparation

- MicroRNA : https://en.wikipedia.org/wiki/MicroRNA_sequencing
- NCBI : https://pmc.ncbi.nlm.nih.gov/articles/PMC9317484/

Instructor

Industry Experienced

Target Audiance

This course is designed for graduate students, postdoctoral researchers, and professionals working in the fields of conservation biology, evolutionary genomics, and population genetics or any life sciences who are interested in applying genomic tools to real-world conservation challenges.

Contact

Please write us at info@arraygen.com or call or whatsapp us on mobile +91-9673625446 if you need any clarification or for any custom training based on candidate reference paper or candidate own content/tools.

Course Information
Course miRNASeq (Differential miRNA expression)
Duration online 15 Days Training [ 2 Hours Daily [ Monday To Friday ] ]

Slots

Our working Time is 9:00 AM to 6:00 PM Indian Time Available slots - 9:00 AM to 11:00 AM / 11:00 AM to 1:00 PM / 2:00 PM to 4:00 PM / 4:00 PM to 6:00 PM
For training slots after 6 PM or before 9 am as well as weekends training kindly mention during registration accordingly it will be scheduled.

Mode

👉 For online training candidate have to install ZOOM (with remote control on candidate system which makes 100% interactive)
👉 Run time video recording candidate can make as well as pdf manual will be provided for future reference.
👉 All our training is 100% practical and 100% industrial and 100% interactive which provides same as offline learning.
👉 For doubt clear there will be extra support will be provided based on the requirement.
👉 Certificate will be provided
Sequencing Platform Illumina /Ion Torrent/PacBio/Nanopore
Raw data Candidate can include maximum 4 datasets of their own during training. Publication standards figures and tables will be generated.
Training Fees
Module-I Advanced Bioinformatics & basic programming
Topics
    📘 Introduction to Bioinformatics
    - Overview of bioinformatics and its applications
    - Key concepts in computational biology
    - Role of bioinformatics in genomics, transcriptomics, and proteomics

    📘 Understanding NGS and Genomics Bioinformatics
    - Basics of Next-Generation Sequencing (NGS)
    - Types of NGS data (RNA-seq, WGS, WES)
    - Overview of NGS data formats: FASTQ, BAM, VCF
    - Introduction to pipelines and tools for NGS data analysis

    📘 Databases & Data Retrieval (NCBI and UCSC)
    - Learning how to retrieve biologically correct data
    - Performing complete batch retrieval (e.g., whole exome)
    - NCBI: understanding gene-level data retrieval
    - UCSC: handling large-scale data retrieval
    - UCSC Genome Browser and Table Browser usage
    - Batch Coordinate Retrieval and Genomic Data downloads
    - GFF/GTF gene annotation formats and how to retrieve them
    - Using BLAT for sequence-based search and alignment

    📘 Gene Prediction and Functional Annotation
    - Gene prediction approaches and tools
    - Functional annotation using Gene Ontology (GO)
    - Pathway analysis using KEGG, Reactome
    - Interpreting gene sets and biological relevance

    📘 Standalone/Offline BLAST for Large-Scale Genomic Data
    - Installing and setting up standalone BLAST
    - Running local BLAST for batch sequence alignment
    - Applications in genome-wide homology searches
    - Custom BLAST databases and performance optimization

    📘 PCR Primer Designing and Specificity Check
    - Designing accurate primers for PCR amplification
    - Tools: Primer3, NCBI Primer-BLAST
    - Checking primer specificity using genome-wide BLAST
    - Avoiding non-target amplification through design best practices

    📘 Understanding Python Programming
    - Introduction to Python for bioinformatics
    - Scripting basics: variables, loops, functions
    - Libraries like Biopython, pandas for biological data handling
    - Automating genomic workflows with Python scripts
AND
Module-II Next Generation Sequencing (NGS) - miRNASeq Data Analysis
Topics
    📘 Introduction to miRNAs and miRNA-seq
    - Biology of microRNAs: biogenesis, function, and importance
    - Overview of miRNA-seq technology and applications
    - Comparison with other miRNA profiling methods

    📘 Linux Basics & Environment Setup
    - Linux Command Line Basics
    - Installing Tools (FastQC, Bowtie2, R, miRDeep2, etc.)
    - Using Conda and Shell Scripting

    📘 Introduction to NGS miRNA-seq Data
    - Understanding NGS and its applications
    - Types of sequencing data generated
    - Understanding FASTQ files and sequencing quality scores
    - Common challenges in miRNA-seq data

    📘 Bioinformatics Pipeline for miRNA-seq
    - Quality control
    - Adapter trimming
    - Read alignment to miRNA databases (miRDeep2)
    - Identifying miRNAs, piRNAs, tRNAs, and other RNA types
    - miRNA quantification and count matrix generation

    📘 Differential Expression Analysis
    - R programming understanding
    - Normalization techniques
    - Using DESeq2 or edgeR for differential miRNA expression
    - Visualizing results (heatmaps, volcano plots)

    📘 Novel miRNA Discovery and IsomiR Analysis
    - Identifying novel miRNAs
    - Understanding miRNA isoforms (isomiRs) and their analysis

    📘 Functional Annotation and Target Prediction
    - Predicting miRNA target genes
    - Pathway and Gene Ontology enrichment analysis
    - Pathway Network analysis
    - StringDB and Cytoscape network analysis

Preparation

- MicroRNA : https://en.wikipedia.org/wiki/MicroRNA_sequencing
- NCBI : https://pmc.ncbi.nlm.nih.gov/articles/PMC9317484/

Instructor

Industry Experienced

Target Audiance

This course is designed for graduate students, postdoctoral researchers, and professionals working in the fields of conservation biology, evolutionary genomics, and population genetics or any life sciences who are interested in applying genomic tools to real-world conservation challenges.

Contact

Please write us at info@arraygen.com or call or whatsapp us on mobile +91-9673625446 if you need any clarification or for any custom training based on candidate reference paper or candidate own content/tools.