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Table 2 Comparison of qPCR analysis tools

From: QPCR: Application for real-time PCR data management and analysis

Feature

QPCR

StatMiner 3.0

(Integromics) [32]

qBase 1.3.5 [5]

qBasePlus 1.1 (Biogazelle) [33]

GenEx 4.4.2

(MultiD) [34]

qPCR-DAMS [6]

Import (Applied Biosystems, Lightcycler, BioRad, Excel)

✓1/✓2/-/✓

✓/-/-/✓

✓/✓/✓/✓

✓/✓/✓/✓

-/-/-/✓

-/-/-/✓

Absolute/relative quantification

-/✓

✓/✓

-/✓

-/✓

✓/✓

✓/✓

RDML compliant

-3

-

-

✓

-

-

Calculate Cq

✓

-

-

-

-

✓

Calculate reaction specific efficiency

✓

-

-

-

-

-

Calculate target specific efficiency

✓

✓

✓

✓

✓

-

Includes geNorm, Normfinder

✓/-

✓/✓

✓/-

✓/-

✓/✓

-/-

Normalization

✓

✓

✓

✓

✓

✓

Inter-run calibration

✓

-

✓

✓

-

✓

Calculate fold change ratios

✓

✓

✓

✓

✓

✓

Quality control

✓

✓

✓

✓

-

✓

Statistical tests

✓

✓

-

-

✓

-

Clustering

-

✓

-

-

✓

-

Correlation

-

-

-

-

✓

-

Error propagation

✓

-

✓

✓

-

-

2D, 3D, Scatter, Bar plots

✓/-/-/✓

✓/-/-/✓

-/-/-/✓

-/-/-/✓

✓/✓/✓/✓

-/-/-/-

Multi-user functionality

✓

-

-

-

-

-

Database storage

✓

✓

-

-

-

✓

Web/Standalone/Plugin

✓/-/-

-/✓/-

-/-/✓4

-/✓/-

-/✓/-

-/-/✓5

Freely available

✓

-

✓

-

-

✓

  1. (1) ABI 7000, ABI 7500, ABI 7900; (2) LightCycler 2.0, LightCycler 480; (3) Uses the suggested nomenclature; (4) Microsoft Excel based tool: (5) Microsoft Access based tool