• There is a growing backlog of sequence data resulting from the large amount of time, computing power, and expertise required to complete the data processing.
  • At LC Sciences, we have rapid, standardized workflows in place for filtering, normalizing, alignment and statistical analysis of these large, often complex data sets.
  • LC Sciences’ decade of experience in transcriptomics analysis empowers our bioinformatics services capabilities and ensures fast and reliable results.

  1. Small RNA Sequencing Data Analysis
  2. Degradome Sequencing Data Analysis
  3. Digital Gene Expression Sequencing Data Analysis
  4. RNA-Seq (mRNA) Data Analysis
  5. Total RNA-Seq (Whole Transcriptome) Sequencing Data Analysis

Next-Gen DNA Sequencer

Next-Gen DNA Sequencer

Next-Gen DNA Sequencer

Next-Gen DNA Sequencer

We can deliver fully analyzed datasets in 3-5 business days.

Your data can be transferred to us via a secure ftp server.

  • Illumina base-calling and analysis
  • Raw sequencing data – 50bp single-end reads – either FASTA-A or FASTA-Q files with base-calling quality scores
  • LC Sciences analysis and quality filtering. Processed data is reduced to mappable reads.
  • Custom construction of reference database(s) – miRBase, genome, etc and mapping of all quality reads
  • Alignment, classification, & functional annotation of all mapped reads
  • Prediction of possible novel miRs

  • Biostatistical analysis – expression analysis, multi-parameter data analysis, length distribution, transcript copy number comparisons, etc. (biological replicates required – see Technical Note – Biological Replicate Considerations – Differential Expression Analysis)
  • Conservation profile of the identified miRNAs analysis
  • Pre-miRNA clusters
  • miRNA target prediction (optional)
  • miRNA target GO and KEGG enrichment analysis (optional)
  • Customer data report – includes a summary of methods and all statistic analysis

  • Assessment of sequencing and quality filtering of raw reads
  • Raw sequencing data – up to 100M  50bp single-end reads/lane – either FASTA-A or FASTA-Q files with base-calling quality scores
  • LC Sciences quality filtered data reduced to mappable reads, a list of unique sequences and their copy numbers
  • Identification of rRNAs, tRNAs, snRNAs, snoRNAs, polyN and other non-coding RNAs

  • Distribution of degradation fragments on selected region of genome
  • Identification of target mRNAs
  • Statistical summary of mRNA degradation sites
  • Identification of degradation mRNA related microRNAs from miRBase (Results will be shown in a target plot diagram.)
  • Customer data report – includes a summary of methods and all statistic analysis

  • Illumina base-calling and analysis
  • Raw sequencing data – 50bp single-end reads – either FASTA-A or FASTA-Q files with base-calling quality scores
  • LC Sciences quality filtered data reduced to mappable reads, a list of unique sequences and their copy numbers
  • Genomic mapping of quality sequencing reads

  • Illumina base-calling and analysis
  • Raw sequencing data – 100bp paired-end reads – either FASTA-A or FASTA-Q files with base-calling quality scores
  • LC Sciences quality filtered data reduced to mappable reads, a list of unique sequences and their copy numbers
  • De novo assembly (if applicable)
  • Alignment of RNA-Seq reads to customer specified reference genome
  • Identification and construction of splice-junctions

  • Report of known transcripts with annotation and abundance
  • Report of novel transcript with abundance
  • Identification of alternate splicing and report of isoform abundance
  • Test for differential expression at gene level and transcript level. (biological replicates required – see Technical Note – Biological Replicate Considerations – Differential Expression Analysis)
  • GO and KEGG annotation and enrichment analysis (optional)
  • Customer data report – includes a summary of methods and all statistical analysis

  • Illumina base-calling and analysis
  • Raw sequencing data – 100bp paired-end reads – either FASTA-A or FASTA-Q files with base-calling quality scores
  • LC Sciences quality filtered data reduced to mappable reads, a list of unique sequences and their copy numbers
  • De novo assembly (if applicable)
  • Alignment of RNA-Seq reads to customer specified reference genome
  • Identification and construction of splice-junctions
  • Report of known transcripts with annotation and abundance

  • Report of novel transcript with abundance
  • Identification of alternate splicing and report of isoform abundance
  • Test for differential expression at gene level and transcript level. (biological replicates required – see Technical Note – Biological Replicate Considerations – Differential Expression Analysis)
  • GO and KEGG annotation and enrichment analysis (optional)
  • Non-coding RNA information – map to genome, alignment, limited annotation and expression info
  • Customer data report – includes a summary of methods and all statistical analysis

Additional Custom Bioinformatics Analysis – If you have additional, more complex bioinformatics needs such as functional gene information mining or comparative genomic analysis, please contact us to learn how we can help get you the results you need to keep your research moving ahead