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Yeast Project - Analysis Results
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This section provides the identifiers and notations used to report the analysis results on this website.
It also provides a description of some parts of the analysis and some comments that may help understand the results.

Experimental Design

  • List of Treatment
  • List of Condition
  • List of Comparisons
  • List of Technical Groups
  • List of Replicates

Analysis Procedure

  • Trimming
    Trimming reads via Trimmomatic
    Maximum 3 Bp from start and 1 Bp from end.
  • Quality Control
    FastQC Reports for Original Reads and Trimmed Reads. Improvement in quality can be noted in trimmed reads.
  • Quantification
    Quantification was performed from Kallisto
    R64-1-1 (SacCer) Annotations used from Ensembl with ERCC Spike-Ins
  • Normalization
    Normalization using ERCC Spike-In counts was performed using RUVgSeq.
  • Dynamic Range
    Dynamic Range plots were produced by ERCCdashboard.
  • Differental Analysis
    Differential analysis was performed using CyberT
  • Functional Analysis
    GO Term enrichment on differential lists was performed using GOrilla
  • TFBS Enrichment Not available yet, currently being performed using MotifMap with sacCer2.

FastQC Reports

Full Report

RUVg Normalization

Raw Counts

RUVg Normalized with ERCC Spike-Ins

Dynamic Range Figures

Common tasks such as downloading a list by a given P-Value or Fold Change can be accomplished by setting the desired thresholds in the column headers and clicking the "XLS", "TSV", or "CSV" buttons.


Statistical figures can be obtained from each column based on the column type (Numeric or Categorical) and can be downloaded as a PNG file.

Data Download

Data Visualization

Data Download

Fold Changes

Data Download

Elution-Input Ratio