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Table 1 Characteristic differences between the two studied datasets

From: Hybridization thermodynamics of NimbleGen Microarrays

Comparison of datasets

Parameter

Pozhitkov et al. [26]

Wei et al. [23]

probe

DNA

DNA

target

rRNA

cDNA

probe length

25-mers

45- to 75-mers

resolution

1 nt

22 nt

number of probes

7, 519a

21, 813b

number of targets

9a

2, 472b

target concentration

375 ng

Unknown

  1. a We analysed the probes perfectly matching the respective separately hybridized individual targets, ensuring no crosshybridization effects.
  2. b We focused on probes targeting clearly expressed transcripts and showing no cross-hybridization in our analysis.
  3. Caption: This table summarizes the characteristic differences between the two datasets studied. The dataset of Pozhitkov et al. [26] comprises tiling probes targeting 9 rRNA fragments. The dataset of Wei et al. [23] consists of tiling probes designed for high-resolution interrogation of the entire human genome. The row 'probes' shows the nucleic acid type of probes, row 'target' the nucleic acid type of targets.