Roche NimbleGen | ChIP-chip | Whole-Genome Designs

Arabidopsis thaliana

Format: 385K
Source: NCBI
Build: TAIR6.0
Probe Length: 50mer
Median Probe Spacing: 90bp
Accession Numbers: NC_003070,NC_003071, NC_003074,NC_003075,NC_003076
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 3-Array Set

	05224209001	A. tha ChIP 385K WG-T Set-3 Arr Del
	C4348001-SET-01	ATH6 ChIP

See Below

Array 1 of 3

	05542863001	A. tha ChIP 385K WG-T 1-3 Arr Del
	C4348001-01-01	ATH6 ChIP 1

chr1

106

30,432,534

chr2

1,001

9,687,876

Array 2 of 3

	05542871001	A. tha ChIP 385K WG-T 2-3 Arr Del
	C4348001-02-01	ATH6 ChIP 2

chr2

9,687,916

19,704,755

chr3

1

23,470,742

chr4

1,001

6,133,069

Array 3 of 3

	05542880001	A. tha ChIP 385K WG-T 3-3 Arr Del
	C4348001-03-01	ATH6 ChIP 3

chr4

6,133,109

18,584,924

chr5

1

26,992,695

Caenorhabditis elegans

2.1M Caenorhabditis elegans

Format: 2.1M
Source: UCSC
Build: CE180
Probe Length: 50-75mer
Median Probe Spacing: 40bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Array 1 of 1

	05542316001	C. ele ChIP 2.1M WG-T Arr Del
	C6781-00-01	CE180 Tiling Set HX1

chr I

489

15,072,205

chr II

321

15,279,085

chr III

126

13,783,367

chr IV

285

17,492,284

chr V

331

20,919,326

chr X

251

17,718,642

385K Caenorhabditis elegans

Format: 385K
Source: UCSC
Build: CE2
Probe Length: 50mer
Median Probe Spacing: 86bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 3-Array Set

	05224225001	C. ele ChIP 385K WG-T Set-3 Arr Del
	C4533-SET-01	C elegans ChIP

See Below

Array 1 of 3

C4533-01-01

C elegans ChIP01

chrI

1

15,080,469

chrII

1

15,279,267

chrIII

1

3,178,860

Array 2 of 3

C4533-02-01

C elegans ChIP02

chrIII

3,178,896

13,783,302

chrIV

1

17,493,781

chrM

1

13,738

chrV

1

5,341,967

Array 3 of 3

C4533-03-01

C elegans ChIP03

chrV

5,342,003

20,922,215

chrX

1

17,718,822

Chicken

Format: 385K
Source: UCSC
Build: galGal3
Probe Length: 50mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 27 Array Set

C4530-SET-01

Gal3Tiling Set

See Below

Array 1 of 27

C4530-01-01

Gal3Tiling Set 1

chr1

1

39,473,000

Array 2 of 27

C4530-02-01

Gal3Tiling Set 2

chr1

39,473,050

80,386,539

Array 3 of 27

C4530-03-01

Gal3Tiling Set 3

chr1

80,386,589

119,731,713

Array 4 of 27

C4530-04-01

Gal3Tiling Set 4

chr1

119,731,763

159,240,269

Array 5 of 27

C4530-05-01

Gal3Tiling Set 5

chr1

159,240,319

198,779,897

Array 6 of 27

C4530-06-01

Gal3Tiling Set 6

chr1

198,779,947

200,993,971

chr1 random

1

222,058

chr2

1

37,050,048

Array 7 of 27

C4530-07-01

Gal3Tiling Set 7

chr2

37,050,098

77,948,675

Array 8 of 27

C4530-08-01

Gal3Tiling Set 8

chr2

77,948,725

117,274,559

Array 9 of 27

C4530-09-01

Gal3Tiling Set 9

chr2

117,274,609

154,873,711

chr2 random

1

142,793

chr3

1

1,760,406

Array 10 of 27

C4530-10-01

Gal3Tiling Set 10

chr3

1,760,456

42,540,444

Array 11 of 27

C4530-11-01

Gal3Tiling Set 11

chr3

42,540,494

81,756,614

Array 12 of 27

C4530-12-01

Gal3Tiling Set 12

chr3

81,756,664

113,657,692

chr4

39

7,608,274

Array 13 of 27

C4530-13-01

Gal3Tiling Set 13

chr4

7,608,324

48,372,531

Array 14 of 27

C4530-14-01

Gal3Tiling Set 14

chr4

48,372,581

87,660,311

Array 15 of 27

C4530-15-01

Gal3Tiling Set 15

chr4

87,660,361

94,230,338

chr4 random

1

180,704

chr5

1

34,275,589

Array 16 of 27

C4530-16-01

Gal3Tiling Set 16

chr5

34,275,639

62,238,856

chr5 random

1

27,851

chr6

1,500,001

12,842,108

Array 17 of 27

C4530-17-01

Gal3Tiling Set 17

chr6

12,842,158

37,400,433

chr6 random

1

34,129

chr7

1

16,259,739

Array 18 of 27

C4530-18-01

Gal3Tiling Set 18

chr7

16,259,789

38,384,711

chr7 random

1

103,968

chr8

1

18,661,092

Array 19 of 27

C4530-19-01

Gal3Tiling Set 19

chr10

1

4,527,828

chr8

18,661,142

30,671,698

chr8 random

1

420,684

chr9

1,500,001

25,554,304

Array 20 of 27

C4530-20-01

Gal3Tiling Set 20

chr10

4,527,878

22,556,366

chr10 random

1

13,674

chr11

1

21,928,091

chr11 random

1

72,609

chr12

1

110,850

Array 21 of 27

C4530-21-01

Gal3Tiling Set 21

chr12

110,900

20,536,630

chr12 random

1

7,004

chr13

500,001

18,911,876

chr13 random

1

35,727

chr14

1

1,168,043

Array 22 of 27

C4530-22-01

Gal3Tiling Set 22

chr14

1,168,093

15,819,374

chr15

1

12,968,127

chr16

1

432,900

chr16 random

1

246,201

chr17

500,001

11,182,467

chr17 random

1

2,851

chr18

1

910,609

Array 23 of 27

C4530-23-01

Gal3Tiling Set 23

chr18

910,659

10,925,251

chr18 random

1

11,883

chr19

1

9,939,630

chr20

1

13,986,179

chr20 random

1

75,038

chr21

1

5,982,361

Array 24 of 27

C4530-24-01

Gal3Tiling Set 24

chr21

5,982,411

6,959,606

chr22

1

3,936,495

chr22 random

1

156,124

chr23

1

6,042,119

chr24

1

6,400,030

chr25

1

2,031,765

chr25 random

1

80,294

chr26

1

5,102,354

chr27

1

4,841,948

chr28

1

4,511,963

chr28 random

1

105,400

chr32

1

951

chrW

1

259,614

chrW random

1

729,474

chrZ

1

7,526,271

Array 25 of 27

C4530-25-01

Gal3Tiling Set 25

chrZ

7,526,321

50,886,328

Array 26 of 27

C4530-26-01

Gal3Tiling Set 26

chrE22C19W28 E50C23

1

895,233

chrE22C19W28 E50C23 random

1

191,057

chrE64

1

49,833

chrE64 random

1

557,616

chrUn random

1

17,557,610

chrZ

50,886,378

74,602,257

chrZ random

1

346,154

Array 27 of 27

C4530-27-01

Gal3Tiling Set 27

chrUn random

17,557,660

63,870,725

Dog

Format: 385K
Source: UCSC
Build: canFam2
Probe Length: 50mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 37 Array Set

C4529-SET-01

canFam2Tiling Set

See Below

Array 1 of 37

C4529-01-01

canFam2Tiling Set 1

chr1

3,012,394

62,278,628

Array 2 of 37

C4529-02-01

canFam2Tiling Set 2

chr1

62,278,678

125,616,165

chr2

3,000,001

5,603,265

Array 3 of 37

C4529-03-01

canFam2Tiling Set 3

chr2

5,603,315

69,134,091

Array 4 of 37

C4529-04-01

canFam2Tiling Set 4

chr2

69,134,594

88,407,229

chr3

3,000,001

48,179,151

Array 5 of 37

C4529-05-01

canFam2Tiling Set 5

chr3

48,179,201

94,714,891

chr4

3,010,521

18,819,981

Array 6 of 37

C4529-06-01

canFam2Tiling Set 6

chr4

18,820,031

81,540,804

Array 7 of 37

C4529-07-01

canFam2Tiling Set 7

chr4

81,540,854

91,483,852

chr5

3,009,839

55,204,271

Array 8 of 37

C4529-08-01

canFam2Tiling Set 8

chr5

55,204,321

91,976,388

chr6

3,015,844

27,099,882

Array 9 of 37

C4529-09-01

canFam2Tiling Set 9

chr6

27,100,060

80,642,094

chr7

3,000,001

12,088,918

Array 10 of 37

C4529-10-01

canFam2Tiling Set 10

chr7

12,088,968

75,099,510

Array 11 of 37

C4529-11-01

canFam2Tiling Set 11

chr7

75,099,560

83,999,176

chr8

3,003,063

58,081,791

Array 12 of 37

C4529-12-01

canFam2Tiling Set 12

chr8

58,081,841

77,307,274

chr9

3,000,001

44,485,970

Array 13 of 37

C4529-13-01

canFam2Tiling Set 13

chr9

44,486,020

64,413,461

chr10

3,003,191

44,470,365

Array 14 of 37

C4529-14-01

canFam2Tiling Set 14

chr10

44,470,415

72,488,496

chr11

3,002,836

38,777,021

Array 15 of 37

C4529-15-01

canFam2Tiling Set 15

chr11

38,777,071

77,416,425

chr12

3,003,326

27,657,072

Array 16 of 37

C4529-16-01

canFam2Tiling Set 16

chr12

27,657,122

75,515,277

chr13

3,003,109

18,623,175

Array 17 of 37

C4529-17-01

canFam2Tiling Set 17

chr13

18,623,225

66,182,432

chr14

3,005,181

19,249,997

Array 18 of 37

C4529-18-01

canFam2Tiling Set 18

chr14

19,250,047

63,938,183

chr15

3,013,266

20,943,569

Array 19 of 37

C4529-19-01

canFam2Tiling Set 19

chr15

20,943,619

67,211,493

chr16

3,008,838

19,476,430

Array 20 of 37

C4529-20-01

canFam2Tiling Set 20

chr16

19,476,480

62,570,129

chr17

3,000,001

20,271,895

Array 21 of 37

C4529-21-01

canFam2Tiling Set 21

chr17

20,271,945

67,340,432

chr18

3,000,001

20,419,229

Array 22 of 37

C4529-22-01

canFam2Tiling Set 22

chr18

20,419,279

58,870,922

chr19

3,000,001

28,339,210

Array 23 of 37

C4529-23-01

canFam2Tiling Set 23

chr19

28,339,260

56,771,301

chr20

3,000,001

37,242,822

Array 24 of 37

C4529-24-01

canFam2Tiling Set 24

chr20

37,242,872

61,280,721

chr21

3,001,882

44,745,333

Array 25 of 37

C4529-25-01

canFam2Tiling Set 25

chr21

44,745,383

54,024,600

chr22

3,000,919

55,735,714

Array 26 of 37

C4529-26-01

canFam2Tiling Set 26

chr22

55,735,764

64,394,174

chr23

3,000,001

55,389,494

chr24

3,000,854

5,202,800

Array 27 of 37

C4529-27-01

canFam2Tiling Set 27

chr24

5,202,850

50,763,049

chr25

3,000,846

21,376,267

Array 28 of 37

C4529-28-01

canFam2Tiling Set 28

chr25

21,376,317

54,563,572

chr26

3,007,786

33,257,971

Array 29 of 37

C4529-29-01

canFam2Tiling Set 29

chr26

33,258,021

42,029,628

chr27

3,000,099

48,905,266

chr28

3,003,108

12,569,835

Array 30 of 37

C4529-30-01

canFam2Tiling Set 30

chr28

12,569,885

44,190,932

chr29

3,023,514

33,081,560

Array 31 of 37

C4529-31-01

canFam2Tiling Set 31

chr29

33,081,610

44,828,998

chr30

3,000,001

43,205,974

chr31

3,000,365

14,273,595

Array 32 of 37

C4529-32-01

canFam2Tiling Set 32

chr31

14,273,645

42,262,811

chr32

3,000,482

38,020,796

Array 33 of 37

C4529-33-01

canFam2Tiling Set 33

chr32

38,020,910

41,730,743

chr33

3,000,001

34,424,222

chr34

3,000,524

29,859,548

Array 34 of 37

C4529-34-01

canFam2Tiling Set 34

chr34

29,859,598

45,128,234

chr35

3,000,157

29,533,501

chr36

3,001,322

22,745,468

Array 35 of 37

C4529-35-01

canFam2Tiling Set 35

chr36

22,745,641

33,840,292

chr37

3,004,135

33,915,094

chr38

3,016,144

20,785,825

Array 36 of 37

C4529-36-01

canFam2Tiling Set 36

chr38

20,785,875

26,897,637

chrX

9

80,254,721

Array 37 of 37

C4529-37-01

canFam2Tiling Set 37

chrM

1

16,694

chrUn

28,809

86,546,042

chrX

80,254,771

126,883,716

Drosophila melanogaster

2.1M Drosophila melanogaster

Format: 2.1M
Source: UCSC
Build: DM5
Probe Length: 50-75mer
Median Probe Spacing: 55bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Array 1 of 1

	05542308001	D. mel ChIP 2.1M WG-T Arr Del
	C7245-00-01	DM5 Tiling Set HX1

chr 2L

5131

23,011,180

chr2Lhet

2,538

367,898

chr 2Rhet

11

3,288,675

chr 2R

3036

21,146,403

chr 3L

19,811

24,541,069

chr 3Lhet

231

2,555,369

chr 3R

6

27,898,700

chr 3Rhet

1

2,517,409

chr 4

1

1,347,833

chr M

6

19,373

chr U

2,051

10,048,502

chr X

116

22,422,248

chr Xhet

666

203,681

chr Yhet

1

346,895

385K Drosophila melanogaster

Format: 385K
Source: UCSC
Build: DM2
Probe Length: 50mer
Median Probe Spacing: 97bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 3 Array Set

	05224268001	D. mel ChIP 385K WG-T Set-3 Arr Del
	C4532-SET-01	DMEL ChIP Set

See Below

Array 1 of 3

C4532-01-01

DMEL ChIP Set 1

chr2L

155

22,403,093

chr2R

1

18,175,156

Array 2 of 3

C4532-02-01

DMEL ChIP Set 2

chr2R

18,175,203

20,766,579

chr2h

1,769

1,693,289

chr3L

94

23,764,120

chr3R

1

13,202,299

Array 3 of 3

C4532-03-01

DMEL ChIP Set 3

chr3R

13,202,346

27,904,842

chr3h

436

2,953,888

chr4

1,724

1,281,635

chr4h

2,261

88,040

chrM

1

14,774

chrU

168,223

8,721,504

chrX

10,779

22,223,781

chrXh

3,311

358,411

chrYh

1,862

394,283

Escherichia coli

Format: 385K
Source: RefSeq
Build: NC_000913.1
Probe Length: 50mer
Median Probe Spacing: 24bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Array 1 of 1

	05542901001	E. col ChIP 385K WG-T Arr Del
	C4215-00-01	Ecoli K12 ChIP

Human

2.1M Human

Format: 2.1M
Source: UCSC
Build: HG18
Probe Length: 50-75mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 10 Array Set

	05327768001	Human ChIP 2.1M WG-T Set-10 Arr Del
	C7257-SET-01	HG18Tiling Set HX1

See Below

Array 1 of 10

	05542359001	Human ChIP 2.1M WG-T 1-10 Arr Del
	C7246-00-01	HG18Tiling Set 1 HX1

chr1

505

247,195,005

chr2

321

60,027,826

Array 2 of 10

	05542367001	Human ChIP 2.1M WG-T 2-10 Arr Del
	C7247-00-01	HG18Tiling Set 2 HX1

chr2

6,002,792

242,951,119

chr3

35,001

106,782,710

Array 3 of 10

	05542375001	Human ChIP 2.1M WG-T 3-10 Arr Del
	C7248-00-01	HG18Tiling Set 3 HX1

chr3

106,782,825

199,501,827

chr4

216

191,273,063

chr5

64,925

2,304,112

Array 4 of 10

	05542383001	Human ChIP 2.1M WG-T 4-10 Arr Del
	C7249-00-01	HG18Tiling Set 4 HX1

chr5

2,304,217

180,857,866

chr6

5,001

111,919,925

Array 5 of 10

	05542391001	Human ChIP 2.1M WG-T 5-10 Arr Del
	C7250-00-01	HG18Tiling Set 5 HX1

chr6

111,920,005

170,899,992

chr7

49,317

158,821,424

chr8

521

74,730,105

Array 6 of 10

	05542405001	Human ChIP 2.1M WG-T 6-10 Arr Del
	C7251-00-01	HG18Tiling Set 6 HX1

chr8

74,730,205

146,274,826

chr9

516

140,273,252

chr10

1,773,517

101,402,412

Array 7 of 10

	05542413001	Human ChIP 2.1M WG-T 7-10 Arr Del
	C7253-00-01	HG18Tiling Set 7 HX1

chr10

101,402,517

135,374,737

chr11

62,725

134,452,384

chr12

17,426

121,385,801

Array 8 of 10

	05542421001	Human ChIP 2.1M WG-T 8-10 Arr Del
	C7254-00-01	HG18Tiling Set 8 HX1

chr12

121,385,901

132,349,534

chr13

17,918,026

114,142,980

chr14

18,070,206

106,368,585

chr15

18,260,026

100,338,915

chr16

23

6,248,313

Array 9 of 10

	05542430001	Human ChIP 2.1M WG-T 9-10 Arr Del
	C7255-00-01	HG18Tiling Set 9 HX1

chr16

6,248,403

88,827,254

chr17

16

78,774,742

chr18

623

76,117,153

chr19

11,316

63,811,651

chr20

8,016

16,260,605

Array 10 of 10

	05542448001	Human ChIP 2.1M WG-T 10-10 Arr Del
	C7256-00-01	HG18Tiling Set 10 HX1

chr20

16,260,705

62,435,704

chr21

9,720,013

46,944,102

chr22

14,430,026

49,590,821

chrX

112

154,912,711

chrY

112

57,771,911

chr1 random

721

1,663,126

chr2 random

21

185,401

chr3 random

16

749,118

chr4 random

16

842,224

chr5 random

11

143,119

chr6 random

26

1,875,407

chr7 random

101

549,124

chr8 random

16

943,723

chr9 random

402

1,146,305

chr10 random

6

112,020

chr11 random

26

214,804

chr13 random

6

186,723

chr15 random

1

784,221

chr16 random

6

105,409

chr17 random

26

2,617,303

chr18 random

16

4,126

chr19 random

701

301,702

chr21 random

1

1,679,604

chr22 random

21

256,508

chrX random

6

1,718,603

2.1M Human - Economy

Format: 2.1M
Source: UCSC
Build: HG18
Probe Length: 50-75mer
Median Probe Spacing: 205bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 4 Array Set

	05327890001	Human ChIP 2.1M Econ WG-T Set-4 Arr Del
	C7262-SET-01	HG18 ECONOMY Tiling Set HX1

See Below

Array 1 of 4

	05542456001	Human ChIP 2.1M Econ WG-T 1-4 Arr Del
	C7258-00-01	HG18 ECONOMY Tiling Set 1 HX1

chr1

1,313

247,195,565

chr1 random

1,611

1,662,469

chr2

2,201

242,751,149

chr2 random

21

185,571

chr3

35,003

199,434,305

chr3 random

1

749,178

ch4

6,126

44,383,123

Array 2 of 4

	05542464001	Human ChIP 2.1M Econ WG-T 2-4 Arr Del
	C7259-00-01	HG18 ECONOMY Tiling Set 2 HX1

chr4

44,382,481

191,260,303

chr4 random

1

842,414

chr5

64,884

180,837,023

chr5 random

230

141,377

chr6

5,003

170,896,992

chr6 random

443

1,875,467

chr7

34,003

158,821,318

chr7 random

68

547,255

chr8

1

72,911,264

Array 3 of 4

	05542472001	Human ChIP 2.1M Econ WG-T 3-4 Arr Del
	C7260-00-01	HG18 ECONOMY Tiling Set 3 HX1

chr8

72,910,390

146,273,068

chr8 random

621

943,633

chr9

1,577

140,269,382

chr9 random

1,152

1,146,350

chr10

50,003

135,372,404

chr10 random

1

113,198

chr11

50,003

134,450,777

chr11 random

1

214,910

chr12

17,432

132,289,534

chr13

17,918,003

114,127,903

chr13 random

1

186,321

chr14

18,126,854

41,598,996

Array 4 of 4

	05542499001	Human ChIP 2.1M Econ WG-T 4-4 Arr Del
	C7261-00-01	HG18 ECONOMY Tiling Set 4 HX1

chr14

41,599,466

106,360,585

chr15

18,303,913

100,337,245

chr15 random

1

784,131

chr16

1,145

88,820,562

chr16 random

487

105,389

chr17

1

78,654,674

chr17 random

1

2,617,421

chr18

1,148

76,116,178

chr18 random

1

4,020

chr19

11,003

63,806,013

chr19 random

8,248

301,762

chr20

8,003

62,432,795

chr21

9,734,029

46,941,590

chr21 random

1

1,679,594

chr22

14,430,003

49,590,901

chr22 random

1

256,573

chrM

1

16,340

chrX

449

154,911,455

chrX random

1

1,718,581

chrY

449

57,770,655

385K Human

Format: 385K
Source: UCSC
Build: HG18
Probe Length: 50mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 38 Array Set

C4524-SET-01

HG18Tiling Set

See Below

Array 1 of 38

C4524-01-01

HG18Tiling Set 1

chr1

1,644

77,833,868

Array 2 of 38

C4524-02-01

HG18Tiling Set 2

chr1

77,833,918

175,048,429

Array 3 of 38

C4524-03-01

HG18Tiling Set 3

chr1

175,050,895

247,197,901

chr1 random

1,609

1,660,118

chr2

2,789

166,769

Array 4 of 38

C4524-04-01

HG18Tiling Set 4

chr2

166,819

71,983,140

Array 5 of 38

C4524-05-01

HG18Tiling Set 5

chr2

71,983,425

150,976,181

Array 6 of 38

C4524-06-01

HG18Tiling Set 6

chr2

150,976,231

221,986,862

Array 7 of 38

C4524-07-01

HG18Tiling Set 7

chr2

221,986,912

242,751,051

chr2 random

1

185,538

chr3

35,001

53,042,567

Array 8 of 38

C4524-08-01

HG18Tiling Set 8

chr3

53,043,153

130,523,638

Array 9 of 38

C4524-09-01

HG18Tiling Set 9

chr3

130,523,688

199,446,729

chr3 random

1,180

749,171

chr4

6,124

5,907,785

Array 10 of 38

C4524-10-01

HG18Tiling Set 10

chr4

5,907,836

86,895,691

Array 11 of 38

C4524-11-01

HG18Tiling Set 11

chr4

86,895,741

162,579,935

Array 12 of 38

C4524-12-01

HG18Tiling Set 12

chr4

162,580,158

191,260,272

chr4 random

1

842,645

chr5

64,882

43,102,632

Array 13 of 38

C4524-13-01

HG18Tiling Set 13

chr5

43,102,682

120,977,621

Array 14 of 38

C4524-14-01

HG18Tiling Set 14

chr5

120,977,671

180,836,772

chr5 random

700

141,287

chr6

5,001

14,400,058

Array 15 of 38

C4524-15-01

HG18Tiling Set 15

chr6

14,400,108

93,424,260

Array 16 of 38

C4524-16-01

HG18Tiling Set 16

chr6

93,424,310

165,905,673

Array 17 of 38

C4524-17-01

HG18Tiling Set 17

chr6

165,905,853

170,896,928

chr6 random

723

1,875,488

chr7

34,001

71,893,449

Array 18 of 38

C4524-18-01

HG18Tiling Set 18

chr7

71,893,499

146,115,149

Array 19 of 38

C4524-19-01

HG18Tiling Set 19

chr7

146,115,199

158,821,243

chr7 random

66

547,244

chr8

1

64,734,981

Array 20 of 38

C4524-20-01

HG18Tiling Set 20

chr8

64,735,105

139,834,728

Array 21 of 38

C4524-21-01

HG18Tiling Set 21

chr8

139,834,778

146,273,006

chr8 random

2,645

943,766

chr9

1,894

87,382,297

Array 22 of 38

C4524-22-01

HG18Tiling Set 22

chr10

50,001

19,976,990

chr9

87,382,347

140,272,350

chr9 random

1,524

1,146,418

Array 23 of 38

C4524-23-01

HG18Tiling Set 23

chr10

19,977,040

99,783,066

Array 24 of 38

C4524-24-01

HG18Tiling Set 24

chr10

99,783,524

135,370,851

chr10 random

899

113,241

chr11

50,001

35,341,402

Array 25 of 38

C4524-25-01

HG18Tiling Set 25

chr11

35,341,452

117,277,977

Array 26 of 38

C4524-26-01

HG18Tiling Set 26

chr11

117,278,030

134,450,373

chr11 random

1

215,264

chr12

17,430

58,836,794

Array 27 of 38

C4524-27-01

HG18Tiling Set 27

chr12

58,836,844

132,289,483

chr13

17,918,001

22,162,992

Array 28 of 38

C4524-28-01

HG18Tiling Set 28

chr13

22,163,047

95,001,767

Array 29 of 38

C4524-29-01

HG18Tiling Set 29

chr13

95,001,817

114,127,886

chr13 random

1

186,280

chr14

18,126,852

72,700,758

Array 30 of 38

C4524-30-01

HG18Tiling Set 30

chr14

72,700,808

106,360,511

chr15

18,303,911

58,530,389

Array 31 of 38

C4524-31-01

HG18Tiling Set 31

chr15

58,530,439

100,336,874

chr15 random

1

784,326

chr16

1,462

32,788,140

Array 32 of 38

C4524-32-01

HG18Tiling Set 32

chr16

32,788,379

88,820,540

chr16 random

485

105,474

chr17

1

28,580,036

Array 33 of 38

C4524-33-01

HG18Tiling Set 33

chr17

28,580,086

78,654,701

chr17 random

1

2,617,362

chr18

1,146

22,939,995

Array 34 of 38

C4524-34-01

HG18Tiling Set 34

chr18

22,940,045

76,116,085

chr18 random

1

4,250

chr19

11,001

19,529,590

Array 35 of 38

C4524-35-01

HG18Tiling Set 35

chr19

19,529,928

63,805,962

chr19 random

8,246

301,805

chr20

11,165

50,138,814

Array 36 of 38

C4524-36-01

HG18Tiling Set 36

chr20

50,138,864

62,432,160

chr21

9,882,592

46,941,530

chr21 random

1,024

1,679,609

chr22

14,430,066

39,529,828

Array 37 of 38

C4524-37-01

HG18Tiling Set 37

chr22

39,529,878

49,590,841

chr22 random

1

257,295

chrX

447

85,044,437

Array 38 of 38

C4524-38-01

HG18Tiling Set 38

chrM

1

16,477

chrX

85,044,487

154,911,115

chrX random

1

1,718,128

chrY

447

57,770,315

Mouse

2.1M Mouse

Format: 2.1M
Source: UCSC
Build: MM8
Probe Length: 50-75mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 10 Array Set

	05327903001	Human ChIP 2.1M WG-T Set-10 Arr Del
	C7273-SET-01	MM8Tiling Set HX1

See Below

Array 1 of 10

	05542502001	Mouse ChIP 2.1M WG-T 1-10 Arr Del
	C7264-00-01	MM8Tiling Set 1 HX1

chr1

3,000,001

197,069,505

chr1 random

122

172,060

chr2

3,006,249

65,850,316

Array 2 of 10

	05542529001	Mouse ChIP 2.1M WG-T 2-10 Arr Del
	C7265-00-01	MM8Tiling Set 2 HX1

chr2

65,850,426

181,926,682

chr3

3,000,001

143,307,173

Array 3 of 10

	05542537001	Mouse ChIP 2.1M WG-T 3-10 Arr Del
	C7266-00-01	MM8Tiling Set 3 HX1

chr3

143,307,273

159,871,956

chr4

3,006,417

155,029,602

chr5

3,000,001

92,685,503

Array 4 of 10

	05542545001	Mouse ChIP 2.1M WG-T 4-10 Arr Del
	C7266-00-01	MM8Tiling Set 4 HX1

chr5

92,685,618

152,002,850

chr5 random

26

2,921,095

chr6

3,000,001

149,525,609

chr7

3,000,201

56,647,386

Array 5 of 10

	05542553001	Mouse ChIP 2.1M WG-T 5-10 Arr Del
	C7267-00-01	MM8Tiling Set 5 HX1

chr7

54,647,476

145,133,950

chr7 random

141

243,809

chr8

3,000,026

132,084,963

chr8 random

16

206,850

chr9

3,000,026

40,163,952

Array 6 of 10

	05542561001	Mouse ChIP 2.1M WG-T 6-10 Arr Del
	C7268-00-01	MM8Tiling Set 6 HX1

chr9

40,164,052

124,000,522

chr9 random

26

16,954

chr10

3,000,218

129,957,189

chr10 random

26

10,495

chr11

3,000,001

41,900,738

Array 7 of 10

	05542570001	Mouse ChIP 2.1M WG-T 7-10 Arr Del
	C7269-00-01	MM8Tiling Set 7 HX1

chr11

41,900,844

121,798,365

chr12

3,000,001

120,463,003

chr13

3,001,721

55,855,799

Array 8 of 10

	05542588001	Mouse ChIP 2.1M WG-T 8-10 Arr Del
	C7270-00-01	MM8Tiling Set 8 HX1

chr13

55,855,898

120,614,219

chr13 random

6

436,079

chr14

3,001,139

123,976,001

chr15

3,000,001

76,463,380

Array 9 of 10

	05542596001	Mouse ChIP 2.1M WG-T 9-10 Arr Del
	C7271-00-01	MM8Tiling Set 9 HX1

chr15

76,463,500

103,492,425

chr15 random

16

105,806

chr16

3,000,056

98,252,277

chr17

3,000,001

95,177,318

chr17 random

51

88,976

chr18

3,000,001

40,478,067

Array 10 of 10

	05542600001	Mouse ChIP 2.1M WG-T 10-10 Arr Del
	C7272-00-01	MM8Tiling Set 10 HX1

chr18

40,478,152

90,736,262

chr19

3,000,156

61,321,048

chrM

26

16,224

chrUn random

126

1,539,898

chrX

3,000,026

165,555,977

chrX random

326

39,548

chrY

6

2,729,267

chrY random

6,484

14,577,549

2.1M Mouse - Economy

Format: 2.1M
Source: UCSC
Build: MM8
Probe Length: 50-75mer
Median Probe Spacing: 203bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 4 Array Set

	05327911001	Mouse ChIP 2.1M Econ WG-T Set-4 Arr Del
	C7278-SET-01	MM8 ECONOMY Tiling Set HX1

See Below

Array 1 of 4

	05542618001	Mouse ChIP 2.1M Econ WG-T 1-4 Arr Del
	C7274-00-01	MM8 ECONOMY Tiling Set 1 HX1

chr1

3,000,159

197,066,856

chr1 random

104

172,149

chr2

3,006,248

181,926,726

chr3

3,000,003

159,872,112

chr4

3,006,469

119,314,705

Array 2 of 4

	05542626001	Mouse ChIP 2.1M Econ WG-T 2-4 Arr Del
	C7275-00-01	MM8 ECONOMY Tiling Set 2 HX1

chr4

119,312,724

155,029,701

chr5

3,004,823

152,002,929

chr5 random

357

2,921,247

chr6

3,000,003

149,525,594

chr7

3,002,500

145,134,020

chr7 random

830

243,836

chr8

3,001,012

132,084,168

ch8 random

335

206,961

chr9

3,038,422

39,288,818

Array 3 of 4

	05542634001	Mouse ChIP 2.1M Econ WG-T 3-4 Arr Del
	C7276-00-01	MM8 ECONOMY Tiling Set 3 HX1

chr9

39,287,970

123,999,613

chr9 random

1

16,784

chr10

3,002,173

129,952,335

chr10 random

1

10,556

chr11

3,005,469

121,798,411

chr12

3,000,003

120,463,159

chr13

3,002,645

120,614,378

chr13 random

513

436,191

chr14

3,000,285

57,853,012

Array 4 of 4

	05542642001	Mouse ChIP 2.1M Econ WG-T 4-4 Arr Del
	C7277-00-01	MM8 ECONOMY Tiling Set 4 HX1

chr14

57,850,947

123,975,935

chr15

3,002,688

103,492,224

chr15 random

1

105,932

chr16

3,001,531

98,252,333

chr17

3,000,003

95,177,217

chr17 random

61

88,403

chr18

3,000,971

90,736,071

chr19

3,000,196

61,321,190

chrM

1

16,299

chrUn random

565

1,539,866

chrX

3,007,929

165,556,094

chrX random

3,484

39,696

chrY

151

2,729,286

chrY random

6,494

14,577,732

385K Mouse

Format: 385K
Source: UCSC
Build: MM8
Probe Length: 50mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 38-Array Set

C4527-SET-01

MM8Tiling Set

See Below

Array 1 of 38

C4527-01-01

MM8Tiling Set 1

chr1

3,000,157

73,220,987

Array 2 of 38

C4527-02-01

MM8Tiling Set 2

chr1

73,221,037

145,835,677

Array 3 of 38

C4527-03-01

MM8Tiling Set 3

chr1

145,835,727

197,066,777

chr1 random

102

172,125

chr2

3,006,246

14,803,550

Array 4 of 38

C4527-04-01

MM8Tiling Set 4

chr2

14,803,600

78,803,469

Array 5 of 38

C4527-05-01

MM8Tiling Set 5

chr2

78,803,519

144,694,967

Array 6 of 38

C4527-06-01

MM8Tiling Set 6

chr2

144,695,017

181,926,733

chr3

3,000,001

35,945,810

Array 7 of 38

C4527-07-01

MM8Tiling Set 7

chr3

35,946,023

105,538,217

Array 8 of 38

C4527-08-01

MM8Tiling Set 8

chr3

105,538,373

159,872,029

chr4

3,006,467

13,466,829

Array 9 of 38

C4527-09-01

MM8Tiling Set 9

chr4

13,466,879

86,052,953

Array 10 of 38

C4527-10-01

MM8Tiling Set 10

chr4

86,053,003

151,907,497

Array 11 of 38

C4527-11-01

MM8Tiling Set 11

chr4

151,907,547

155,029,701

chr5

3,002,590

66,825,929

Array 12 of 38

C4527-12-01

MM8Tiling Set 12

chr5

66,825,979

132,198,192

Array 13 of 38

C4527-13-01

MM8Tiling Set 13

chr5

132,198,242

152,002,824

chr5 random

1

2,921,181

chr6

3,000,336

49,711,116

Array 14 of 38

C4527-14-01

MM8Tiling Set 14

chr6

49,711,166

116,290,338

Array 15 of 38

C4527-15-01

MM8Tiling Set 15

chr6

116,290,495

149,525,670

chr7

3,002,498

47,370,177

Array 16 of 38

C4527-16-01

MM8Tiling Set 16

chr7

47,370,227

115,300,979

Array 17 of 38

C4527-17-01

MM8Tiling Set 17

chr7

115,301,029

145,133,805

chr7 random

152

243,780

chr8

3,000,187

37,161,130

Array 18 of 38

C4527-18-01

MM8Tiling Set 18

chr8

37,161,180

106,292,103

Array 19 of 38

C4527-19-01

MM8Tiling Set 19

chr8

106,292,153

132,084,079

chr8 random

1

206,881

chr9

3,038,420

43,286,226

Array 20 of 38

C4527-20-01

MM8Tiling Set 20

chr9

43,286,276

105,899,668

Array 21 of 38

C4527-21-01

MM8Tiling Set 21

chr10

3,002,171

52,787,705

chr9

105,899,718

123,997,618

chr9 random

1

16,735

Array 22 of 38

C4527-22-01

MM8Tiling Set 22

chr10

52,787,755

117,084,713

Array 23 of 38

C4527-23-01

MM8Tiling Set 23

chr10

117,084,763

129,952,011

chr10 random

1

10,464

chr11

3,005,467

56,613,072

Array 24 of 38

C4527-24-01

MM8Tiling Set 24

chr11

56,613,122

117,015,745

Array 25 of 38

C4527-25-01

MM8Tiling Set 25

chr11

117,015,795

121,798,318

chr12

3,000,001

66,136,890

Array 26 of 38

C4527-26-01

MM8Tiling Set 26

chr12

66,136,940

120,463,116

chr13

3,001,731

13,478,312

Array 27 of 38

C4527-27-01

MM8Tiling Set 27

chr13

13,478,362

79,149,705

Array 28 of 38

C4527-28-01

MM8Tiling Set 28

chr13

79,149,801

120,614,368

chr13 random

1

436,142

chr14

3,000,283

28,012,624

Array 29 of 38

C4527-29-01

MM8Tiling Set 29

chr14

28,012,674

95,499,352

Array 30 of 38

C4527-30-01

MM8Tiling Set 30

chr14

95,499,402

123,975,857

chr15

3,001,925

42,329,373

Array 31 of 38

C4527-31-01

MM8Tiling Set 31

chr15

42,329,489

103,492,126

chr15 random

1

105,912

chr16

3,001,091

5,125,906

Array 32 of 38

C4527-32-01

MM8Tiling Set 32

chr16

5,126,120

71,871,524

Array 33 of 38

C4527-33-01

MM8Tiling Set 33

chr16

71,871,574

98,252,249

chr17

3,000,366

42,700,654

Array 34 of 38

C4527-34-01

MM8Tiling Set 34

chr17

42,700,704

95,177,193

chr17 random

59

88,343

chr18

3,000,001

18,021,916

Array 35 of 38

C4527-35-01

MM8Tiling Set 35

chr18

18,021,966

81,920,670

Array 36 of 38

C4527-36-01

MM8Tiling Set 36

chr18

81,920,720

90,736,043

chr19

3,000,194

58,910,586

Array 37 of 38

C4527-37-01

MM8Tiling Set 37

chr19

58,910,636

61,321,095

chrX

3,007,927

93,883,916

Array 38 of 38

C4527-38-01

MM8Tiling Set 38

chrM

1

16,293

chrUn random

719

1,539,820

chrX

93,883,966

165,556,020

chrX random

342

39,608

chrY

1

2,728,984

chrY random

6,952

14,577,665

Rat

2.1M Rat

Format: 2.1M
Source: UCSC
Build: RN34
Probe Length: 50-75mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 10 Array Set

	05327920001	Rat ChIP 2.1M WG-T Set-10 Arr Del
	C7290-SET-01	RN34Tiling Set HX1

See Below

Array 1 of 10

	05542669001	Rat ChIP 2.1M WG-T 1-10 Arr Del
	C7279-00-01	RN34Tiling Set 1 HX1

chr1

1

267,910,774

chr1 random

1

3,884,837

chr2

26

13,557,674

Array 2 of 10

	05542677001	Rat ChIP 2.1M WG-T 2-10 Arr Del
	C7281-00-01	RN34Tiling Set 2 HX1

chr2

13,557,774

258,200,598

chr2 random

26,460

4,341,770

chr3

176

34,210,905

Array 3 of 10

	05542685001	Rat ChIP 2.1M WG-T 3-10 Arr Del
	C7282-00-01	RN34Tiling Set 3 HX1

chr3

34,211,015

171,063,124

chr3 random

5,681

1,719,288

chr4

171

133,406,152

Array 4 of 10

	05542693001	Rat ChIP 2.1M WG-T 4-10 Arr Del
	C7283-00-01	RN34Tiling Set 4 HX1

chr4

133,406,273

187,125,435

chr4 random

341

2,119,523

Chr5

3,947

173,096,030

Chr5 random

31

2,145,029

Chr6

5,546

46,956,292

Array 5 of 10

	05542707001	Rat ChIP 2.1M WG-T 5-10 Arr Del
	C7284-00-01	RN34Tiling Set 5 HX1

Chr6

46,956,377

147,630,631

Chr6 random

26

1,765,697

Chr7

6,147

143,002,565

Chr7 random

136

1,172,477

Chr8

126

29,013,150

Array 6 of 10

	05542715001	Rat ChIP 2.1M WG-T 6-10 Arr Del
	C7285-00-01	RN34Tiling Set 6 HX1

Chr8

29,013,250

129,041,601

Chr8 random

62

886,901

Chr9

3,248

113,440,328

Chr9 random

194

1,163,513

chr10

1

48,202,137

Array 7 of 10

	05542723001	Rat ChIP 2.1M WG-T 7-10 Arr Del
	C7286-00-01	RN34Tiling Set 7 HX1

chr10

48,202,262

110,718,677

chr10 random

2

869,685

chr11

5,218

87,757,579

chr11 random

26

1,273,526

chr12

531

46,782,101

chr12 random

7,324

947,965

chr13

16

74,362,754

Array 8 of 10

	05542731001	Rat ChIP 2.1M WG-T 8-10 Arr Del
	C7287-00-01	RN34Tiling Set 8 HX1

chr13

74,362,854

111,151,339

chr13 random

26

608,244

chr14

1,887

112,193,818

chr14 random

12

1,824,996

chr15

666

109,757,551

chr15 random

2

1,605,910

chr16

6

14,661,336

Array 9 of 10

	05542740001	Rat ChIP 2.1M WG-T 9-10 Arr Del
	C7288-00-01	RN34Tiling Set 9 HX1

chr16

14,661,446

90,232,174

chr16 random

1

1,399,983

chr17

7

97,295,476

chr17 random

3,168

613,253

chr18

873

87,261,725

chr18 random

46

594,412

chr19

21

15,708,114

Array 10 of 10

	05542758001	Rat ChIP 2.1M WG-T 10-10 Arr Del
	C7289-00-01	RN34Tiling Set 10 HX1

chr19

15,708,224

59,213,078

chr19 random

5,698

977,657

Chr20

26

55,263,625

Chr20 random

1

592,543

chrM

26

16,211

chrX

12

160,699,113

chrX random

266

1,977,439

385K Rat

Format: 385K
Source: UCSC
Build: RN3
Probe Length: 50mer
Median Probe Spacing: 100bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Whole Genome 37 Array Set

C4528-SET-01

RN3Tiling Set

See Below

Array 1 of 37

C4528-01-01

RN3Tiling Set 1

chr1

5,520

79,919,584

Array 2 of 37

C4528-02-01

RN3Tiling Set 2

chr1

79,919,634

154,041,905

Array 3 of 37

C4528-03-01

RN3Tiling Set 3

chr1

154,041,955

224,172,034

Array 4 of 37

C4528-04-01

RN3Tiling Set 4

chr1

224,172,084

267,910,880

chr2

1

31,354,399

Array 5 of 37

C4528-05-01

RN3Tiling Set 5

chr2

31,354,517

109,576,919

Array 6 of 37

C4528-06-01

RN3Tiling Set 6

chr2

109,576,969

185,872,738

Array 7 of 37

C4528-07-01

RN3Tiling Set 7

chr2

185,872,788

256,774,166

Array 8 of 37

C4528-08-01

RN3Tiling Set 8

chr2

256,774,216

258,200,683

chr3

1

68,062,290

Array 9 of 37

C4528-09-01

RN3Tiling Set 9

chr3

68,062,340

139,490,656

Array 10 of 37

C4528-10-01

RN3Tiling Set 10

chr3

139,490,706

171,063,075

chr4

3,118

39,789,881

Array 11 of 37

C4528-11-01

RN3Tiling Set 11

chr4

39,789,931

115,751,389

Array 12 of 37

C4528-12-01

RN3Tiling Set 12

chr4

115,751,720

184,999,983

Array 13 of 37

C4528-13-01

RN3Tiling Set 13

chr4

185,000,037

187,125,250

chr5

5,760

77,486,463

Array 14 of 37

C4528-14-01

RN3Tiling Set 14

chr5

77,486,513

151,080,950

Array 15 of 37

C4528-15-01

RN3Tiling Set 15

chr5

151,081,000

173,096,189

chr6

5,572

47,549,369

Array 16 of 37

C4528-16-01

RN3Tiling Set 16

chr6

47,549,419

121,154,039

Array 17 of 37

C4528-17-01

RN3Tiling Set 17

chr6

121,154,089

147,630,634

chr7

6,203

47,765,412

Array 18 of 37

C4528-18-01

RN3Tiling Set 18

chr7

47,765,462

117,227,981

Array 19 of 37

C4528-19-01

RN3Tiling Set 19

chr7

117,228,031

143,002,625

chr8

3,406

46,729,790

Array 20 of 37

C4528-20-01

RN3Tiling Set 20

chr8

46,729,840

113,494,580

Array 21 of 37

C4528-21-01

RN3Tiling Set 21

chr8

113,494,630

129,041,631

chr9

2,845

56,983,099

Array 22 of 37

C4528-22-01

RN3Tiling Set 22

chr10

1

10,356,380

chr9

56,983,149

113,440,438

Array 23 of 37

C4528-23-01

RN3Tiling Set 23

chr10

10,361,275

76,932,657

Array 24 of 37

C4528-24-01

RN3Tiling Set 24

chr10

76,932,707

110,718,830

chr11

5,213

34,964,213

Array 25 of 37

C4528-25-01

RN3Tiling Set 25

chr11

34,964,263

87,757,544

chr12

1

19,861,316

Array 26 of 37

C4528-26-01

RN3Tiling Set 26

chr12

19,861,366

46,782,087

chr13

1

53,625,008

Array 27 of 37

C4528-27-01

RN3Tiling Set 27

chr13

53,625,058

111,151,398

chr14

1,899

12,118,032

Array 28 of 37

C4528-28-01

RN3Tiling Set 28

chr14

12,118,082

85,664,357

Array 29 of 37

C4528-29-01

RN3Tiling Set 29

chr14

85,664,970

112,194,154

chr15

1,104

46,654,817

Array 30 of 37

C4528-30-01

RN3Tiling Set 30

chr15

46,655,396

109,756,002

chr16

1

8,863,419

Array 31 of 37

C4528-31-01

RN3Tiling Set 31

chr16

8,863,469

82,449,341

Array 32 of 37

C4528-32-01

RN3Tiling Set 32

chr16

82,449,391

90,228,347

chr17

137

63,195,861

Array 33 of 37

C4528-33-01

RN3Tiling Set 33

chr17

63,195,911

97,296,037

chr18

8,835

39,586,512

Array 34 of 37

C4528-34-01

RN3Tiling Set 34

chr18

39,586,562

87,261,790

chr19

1

21,122,883

Array 35 of 37

C4528-35-01

RN3Tiling Set 35

chr19

21,122,933

59,213,157

chr20

1

30,044,447

Array 36 of 37

C4528-36-01

RN3Tiling Set 36

chr20

30,044,497

55,268,200

chrX

1

63,265,501

Array 37 of 37

C4528-37-01

RN3Tiling Set 37

chrM

1

16,271

chrX

63,265,711

160,698,566

Saccharomyces cerevisiae

Format: 385K
Source: UCSC
Build: sacCer1
Probe Length: 50mer
Median Probe Spacing: 32bp
Recommended Storage: Store arrays desiccated at room temperature.

Description

Catalog Number

Design Name

Chromo-
some

Tiling Start

Tiling Stop

Array 1 of 1

	05542898001	S. cer ChIP 385K WG-T Arr Del
	C4214-00-01	Scerevisiae ChIP

Literature

NimbleGen ChIP-chip Microarrays and Services
Brochure (PDF Format 2.7MB)
NimbleGen ChIP-chip 4x72K Array Delivery
Datasheet (PDF Format 256KB)
NimbleGen ChIP-chip 2.1M Whole-Genome Tiling and Deluxe Promoter Array Delivery
Datasheet (PDF Format 419KB)
NimbleGen Arrays User’s Guide: ChIP-chip Analysis (Version 4.1)
User’s Guide (PDF Format 3.2MB)
Guide to Identifying Motifs from Your ChIP-chip Data
CEAS User’s Guide (PDF Format 108KB)
Find out more about CEAS...
Guide to Functionally Annotating Your ChIP-chip Data
DAVID User’s Guide (PDF Format 274KB)
Find our more about DAVID...
ChIP-Grade Antibodies
List of ChIP-chip Validated Antibodies (PDF Format 88KB)
385K HG18 Tiled Promoters
List of HG18 genes whose promoters are tiled on 385K Promoter Arrays (Excel Format 13.2MB)
385K MM8 Tiled Promoters
List of MM8 genes whose promoters are tiled on 385K Promoter Arrays (Excel Format 11.3MB)
Using Chromatin Immunoprecipitations (ChIP) to Determine Protein Binding Sites on DNA
Whitepaper (PDF Format 436KB)
ChIP-chip Scientific References
Datasheet (PDF Format 215KB)

For a complete listing of literature covering all Roche NimbleGen products and services please visit our literature page.

FAQ

Experimental Design

Do you have a recommended protocol for front-end sample processing for producing ChIP DNA?	Yes, the protocol that we currently provide is based off a protocol from the Ren laboratory at UCSD. Customers are free to use whichever protocol they would like, but we highly recommend this protocol due to its reproducibility with ChIP-chip arrays. Contact Roche NimbleGen Technical Support if you would like the link to this protocol.
Does Roche NimbleGen perform front-end sample processing (e.g. IP and amplification)?	No, Roche NimbleGen is not currently set up to perform contract ChIP-chip experiments for our customers.
What is the minimum number of cells required to perform a Roche NimbleGen recommended ChIP-chip experiment?	The minimum number of cells used for a successful ChIP-chip experiment is approximately 1 x 10⁷. However, ChIP reactions in which abundant molecules are being immunoprecipitated (e.g. histones and RNA polymerase II) require a lesser number of cells for a successful experiment. Remember, if you are starting with less material you would need to adjust all of the volumes and concentrations in each protocol.
What is a suitable negative control for ChIP-chip experiments?	Many of our customers do not use a negative control (e.g. nonspecific IgG antibody), but it is recommended if this is your first experiment with NimbleGen ChIP-chip. You will want to have your negative control (IgG) co-hybridized with total DNA (input) in order to avoid a high signal/noise ratio that is often seen when the IgG sample is co-hybridized with the immunoprecipitated sample.
What other types of controls are used in a ChIP-chip experiment?	The most common experimental control used when performing ChIP is an isotope control, such as nonspecific IgG or antibodies against GST or GFP. A potential pitfall in using these controls is that since the antibodies do not immunoprecipitate the nonspecific DNA yield is often very low. The resulting hybridization also tends to be much noisier and can result in many false positives due to amplification of trace amount of nonspecific DNA. Another, yet rare, control that is sometimes performed is a ChIP using uncrosslinked chromatin. However, many researchers prefer to perform ChIP with an antibody against the protein of interest in a cell line where the protein has been depleted (by target genetic deletion or siRNA). Alternatively, a cell line that does not express the protein of interest could be used as a negative control.
Is it possible to use more than one antibody when performing ChIP or do you recommend using only one antibody per procedure?	Yes, many researchers combine multiple antibodies in their ChIP reaction to screen for antibodies that work well. If positive results are observed from this combined antibody approach, one can go back and perform ChIP using individual antibodies against the protein of interest. You can also perform experiments to examine the binding sites for a multi-protein complex by using a pooled sample of antibodies against all subunits of the complex.
What types of beads should I use to capture the immunoprecipitated DNA?	There are two competing platforms for ChIP based on what type of beads one uses for immunoprecipitation: agarose protein-A/protein-G beads or magnetic latex immunoglobulin beads. Due to the inherent porosity of the agarose beads, a significant amount of nonspecific DNA binding is observed and consequently a much higher ChIP DNA yield than with magnetic latex beads. Some researchers have claimed that they observe good ChIP results without amplification using agarose beads. However, we recommend magnetic beads because we believe these beads will give much cleaner results.
What should I use as a reference sample?	The majority of our customers use total (input) sample as a reference. Using a nonspecific IgG sample is not a suitable reference.

Array Design

Are the probes designed from both strands?	No, Roche NimbleGen only designs probes based off of the forward strand.
How does Roche NimbleGen address repetitive elements in the genome for ChIP-chip designs?	When available, we utilize conventional repeat masking, as done by the RepeatMasker program http://www.repeatmasker.org/). However, NimbleGen has no access to the repeat libraries necessary to perform this application, so we rely on third parties to supply this type of masked sequence. However, we find that RepeatMasker is often overly aggressive and can mask 50%-55% of human DNA sequence. We have developed our own method of repeat masking which is dependent on the mean frequency of the 15mers which make up each 50mer oligo. A table is made of the count of all 15mers that appear in the genome, from both strands. Then a 15mer window is slid along each oligo, looking up the count of each 15mer in the table, and calculating the average count. A threshold is set, usually 100 for large eukaryotic genomes, and any probe that exceeds that threshold is eliminated from further consideration. Depending on the region of the genome being evaluated, approximately 20-25% of the DNA is excluded. A similar technique is used by other groups. See the following paper for reference: Bioinformatics. 2006 Jan 15;22(2):134-41. WindowMasker: window-based masker for sequenced genomes; Morgulis A, Gertz EM, Schaffer AA, Agarwala R; National Center for Biotechnology Information, National Institutes of Health, Department of Health and Human Services Building 38A, Room 1003N, 8600 Rockville Pike, Bethesda, MD 20894, USA.
Why do you use 100bp spacing in ChIP-chip designs?	Our research/development staff has performed experiments in which human probe spacing is varied; they observe a much poorer signal/noise ratio as well as a dramatic increase in the number of false positives when spacing is greater than 100-120 bp.
What spacing do you recommend for ChIP-chip designs?	We recommend probe spacing of 100bp or less.
What are the human ENCODE biologically significant regions that are tiled on 4x72K and human 2.1M Deluxe Promoter arrays?	These regions were picked manually by the ENCODE consortium and are deemed biologically significant in terms of transcriptional regulation. The regions include the HOXA cluster (chromosome 7), ß-globin cluster (chromosome 11), and others.

Sample Processing

How much IP sample should be expected prior to the amplification step?	The amount of IP sample obtained truly depends on the antibody quality and amount of starting material. A standard ChIP reaction yields DNA fragments in the range of ~100ng.
Do I need to amplify my ChIP samples?	Whole genome amplification (WGA) or ligation mediated-PCR (LM-PCR) needs to performed when there is less than 4µg ChIP DNA. NimbleGen recommends the GenomePlex WGA Kits from Sigma-Aldrich.
What method should I use to amplify my ChIP samples?	Past and present NimbleGen ChIP-chip customers have had very good experiences working with the Sigma-Aldrich GenomePlex WGA2 Kit (#WGA2-50RXN). The WGA method seems to be easier and the quality of the amplified DNA is quite good. Many customers find that it is difficult to get LM-PCR to work well. For those that are just beginning ChIP-chip studies, we recommend the use of WGA.
What yield should I expect from LM-PCR?	A standard ChIP reaction yields less than 100ng DNA. After one round of LM-PCR amplification that yield can increase to a few micrograms. If more DNA is needed, a second round of amplification can be performed.
Does LM-PCR cause bias in the sample?	We have found that there tends to be more bias with samples amplified by LM-PCR compared to WGA. We recommend running the amplified DNA on an agarose gel to check for the presence of multiple DNA bands, which indicate poor sample quality. Generally, DNA amplified by WGA gives a smear rather than multiple bands.
Can I use T7 amplification for generating ChIP DNA?	Yes, but we have found that customers need to adequately remove all RNA and protein from the sample. T7 amplified samples frequently arrive at Roche NimbleGen with RNA and protein contamination, which results in low labeling yields and subsequently less than adequate amounts of labeled sample to perform an array hybridization.
Why does NimbleGen use 7mer primers for short fragment labeling?	We use 7mer primers because they seem to be much more efficient at labeling short DNA fragments (<200 bp). We consistently have trouble obtaining adequate yields for short DNA fragments when using 9mer primers.
What is the difference between 7mer and 9mer labeling for the same samples if it is above 200bp?	We are still unclear on the differences between 7mer and 9mer sample labeling for larger DNA fragments. We are in the process of running experiments to test for any differences. Preliminary data has shown that the differences are quite small.
Will all ChIP DNA eventually be labeled using 7mer primers?	Labeling ChIP DNA using exclusively 7mer random primers is a possibility. We are in the process of validating 7mer labeling for ChIP-chip. As of now, all ChIP samples should still be labeled using 9mers.
What is the expected yield from labeling reactions?	One microgram each of IP and total sample are labeled with Cy5 or Cy3, respectively, using a 9mer primer. Our labeling procedure yields 28µg +/- 10µg for ChIP-chip samples. Samples <200bp yield an average of 10µg per labeling reaction.
Which dye should I use for my experimental and reference sample?	We normally label the total sample (input) with Cy3 and the IP sample with Cy5. In the case that you would want to perform a dye swap experiment, you would label total sample (input) with Cy5 and the IP sample with Cy3.
Do I need to order another chip if I am going to perform dye swaps or co-hybridize DNA immunoprecipitated using a nonspecific antibody control?	Yes, to perform a dye swap or co-hybridize DNA immunoprecipitated using a nonspecific antibody control you would need to order additional chips.

Sample Requirements for Service

What are the sample requirements for ChIP-chip?	For a 385K or 4x72K ChIP-chip array, 3.5µg of ChIP DNA is required per array and for a 2.1M ChIP-chip array, 6.5µg of ChIP DNA is required. In both cases, the concentration of the ChIP DNA should be between 250-1000ng/µl, and the majority of the fragments should greater than 200bp long. The A260/A280 ratios should be at least 1.7 and the A260/A230 ratios should be at least 1.6.
What is the normal ChIP-chip fragment size? What if my fragments are smaller?	DNA shearing from a typical ChIP experiment yields 200-1000bp fragments. If the majority of DNA fragments are below 200bp, Roche NimbleGen will have difficulty obtaining adequate labeling yields and hence may not have sufficient material to hybridize to the arrays. However, if your fragments are between 100-1000bp, with the majority of fragments >200bp, than your samples should work well.
How much ChIP DNA do I need to supply if I order the 10 array set?	The 10 array set requires approximately 65µg DNA. For a more economical choice for analyzing whole genome protein/DNA interactions, you can use the 4 array set (human and mouse), which requires at least 26µg DNA.
What if my sample concentration or yield is less then required?	If your sample does not meet our QC requirements you will be contacted by Roche NimbleGen for replacement samples. If you are unable to supply replacements you still have the option of proceeding with the experiment; however, there may be extra charges attached to this sample and the success of your experiment will not be guaranteed.

Data Analysis

Does Roche NimbleGen normalize ChIP-chip data?	No, there is no normalization of ChIP-chip data. However, we do scale the GFF files by subtracting the bi-weight mean for the log-ratio values from each log-ratio value.
Does Roche NimbleGen scale ChIP-chip data?	Yes, Roche NimbleGen scales the ratios in the .gff files by subtracting the bi-weight mean for the log-ratio values from each log-ratio value. If you would like more information about how to calculate a Tukey bi-weight mean scaling please go to Bi-Weight Scale.
Why does Roche NimbleGen use Tukey's bi-weight function for scaling ChIP-chip data?	RMA looks at all the arrays in a set and normalizes the data for all the arrays. ChIP-chip is a two color array with the reference on the array and is therefore thought of as a stand alone experiment. RMA is not an appropriate analysis for ChIP chip data. The Tukey bi-weight function is used to account for differences in the dyes on the array, whereas RMA is used to account for differences between arrays so that the arrays can be compared.
Are there any statistical tests that are applied to my ChIP-chip data?	Yes, we determine the false discovery rate (FDR) for each peak identified from the scaled log₂-ratio data. First the scaled log₂-ratio data is analyzed to identify peaks above a specified cutoff value. Assume we find 20 peaks that are above this cutoff value; the scaled log₂-ratio data is then randomized 20 different times and after each permutation it is determined how many peaks are still above the cutoff value. So, if after randomizing the data 20 times we find that there are 2 peaks above the cutoff value, the FDR is 10% (which is a reasonably good FDR value). FDR values can differ depending on the peak height and number of probes comprising the peak. On SignalMap, the peaks will be color coded corresponding to FDR value for quick identification of statistically significant peaks.
Other than the pair files, does Roche NimbleGen supply any other raw data files?	No, pair files are the only raw data files that Roche NimbleGen includes in delivered ChIP-chip data.
What are the background measurements for a ChIP-chip array?	For any ChIP-chip array, the signal is a mix of non-specific signal, “background”, and specific signal. The information given from random probes do not represent true background measurements, but rather non-specific binding events. Currently, we do not calculate background.
Is there another way to analyze ChIP-chip data?	Yes, the following five sites have been developed to analyze ChIP-chip data. 1. M-peak: Nature. 2005 436(7052):876-80 2.TAMALPAIS Server: 2006 Genome Research 16:595. 3.ACME (in R language): Methods Enzymol. 2006;411:270-82. 4.ChIPOTle: Genome Biology 2005, 6:R97. For the Perl version, go to ChIPOTle Peak Finder 5.Model-based Analysis of 2-Color Arrays MA2C.

Service Deliverables

Can I get the images for my data?	Yes, we can supply the raw data array images (.tif) upon request. Scaled log₂-ratio data (.gff) files and peak (.gff) files are included in your deliverable data.
Can I get a graphical representation of all probes for a catalog design so I can see what regions of the genome have coverage?	Yes, we can generate this information in GFF for all of catalog designs. You will need a copy of Roche NimbleGen's SignalMap software to view the GFF files. A free, 30-day demo version of SignalMap is available for download.
Does Roche NimbleGen generate reports listing the most significant binding/modification events for my ChIP-chip experiment?	Yes, we are including two promoter reports that map the peaks from your ChIP-chip data relative to the transcription start site of a gene. For instance, if a peak is called within the promoter region of a gene, the report lists the approximate location of the peak as a negative position (upstream of the start site) or positive position (downstream). Also listed are accession number of the gene, gene ID, chromosome position, among others. These reports narrow the genomic regions to look at when moving forward to validate your ChIP-chip data (e.g. gel mobility shift assay).

Capabilities

What if a customer has non-nucleosome samples that have an average length of <200bp?

If non-nucleosome samples are <200bp, we utilize 7mer random primers to label DNA. However, at this time such samples will be marked as “at risk” because there has not been sufficient validation using 7mers for non-nucleosome samples.

Can I use NimbleGen ChIP-chip to map DNase I hypersensitive sites?

Yes, NimbleGen ChIP-chip arrays can be used to map DNase I hypersensitive sites. A manuscript by Crawford et al. (2006. Nature Methods. 3:503-509) describes the use of NimbleGen tiled arrays to map hypersensitive sites. Other manuscripts mapping hypersensitive sites using NimbleGen arrays include Sabo et al. (2006. Nature Methods. 3:511-518) and Follows et al. (2006. Genome Research. 16:1310-1319).