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Table 1 Data sources used in this study

From: Mining for novel candidate clock genes in the circadian regulatory network

Type

Source

Characterized

Total

Circadian

Hits

 

Koike et al. [14]

BMAL1

3495

3004

359ns

  

PER1

2984

138

15ns

  

PER2

4255

3495

384ns

  

CRY1

6768

2923

356***

  

CRY2

5230

2717

318**

  

CLOCK

2831

1204

170***

ChIP-seq

 

NPAS

1597

808

121ns

 

Rey et al. [15]

BMAL1

1273

439

228*

 

Cho et al. [16]

REV-ERB α

3849

-

412

  

REV-ERB β

3849

-

412

 

Bugge et al. [21]

REV-ERB α

6256

-

636

 

Feng et al. [22]

REV-ERB β

6444

-

635

 

Fang et al. [23]

ROR α

8457

-

529

  

E4BP4 (NFIL3)

6147

-

437

Proteomics

Robles et al. [25]

 

2877

185

34**

 

Mauvoisin et al. [26]

 

5610

193

35***

 

Chiang et al. [27]

 

1881

47

6ns

Protein-protein interaction

Wallach et al. [28]

 

123

-

25

 

PINA mouse database [31, 32]

 

467

-

33

  1. The source of the published data, the characterized protein or transcription factor, the total number of binding sites for the ChIP-seq data and the number of genes corresponding to the quantified proteins in the case of proteomics or protein-protein interaction data are provided. When data could be filtered to include only circadian components, the number of genes with circadian ChIP-seq or proteomic evidence is also listed. Finally, the total number of hits from each data set among the 1000 gene long master list is given. The statistically overrepresented circadian hits are marked by significance (see “Method” section) :p<0.05,:p<0.01,:p<0.001,ns:not significant