Lefrancois 2009, Efficient Yeast ChIP-Seq using Multiplex Short-Read DNA Sequencing..

Examination of the distribution of PolII (4 biological replicates), Cse4 (3 biological replicates) and Ste12 (3 biological replicates) using barcoded adapters and non-barcoded genomic DNA Illumina adapters. Input DNA was used as a reference sample and for scoring as well.

• Raw data was downloaded from: GEO
• Input file format: TXT
• Download date: n/a

From S. cerevisiae (Apr 2011 R64/sacCer3).

ChIP-seq data:

	Filename	Description	Feature	GEO-ID
1	GSM336333-PolII.sga	PolII	PolII	GSM336333
2	GSM336334-Ste12.sga	Ste12	Ste12	GSM336334
3	GSM336335-Cse4.sga	Cse4	Cse4	GSM336335
4	GSM336336-Input.sga	Input rep1	Input	GSM336336
5	GSM336337-Input.sga	Input rep2	Input	GSM336337
6	GSM336338-Input.sga	Input rep3	Input	GSM336338
7	GSM336333-PolII-rep1.sga	PolII rep1	PolII	GSM336333
8	GSM336333-PolII-rep2.sga	PolII rep2	PolII	GSM336333
9	GSM336333-PolII-rep3.sga	PolII rep3	PolII	GSM336333
10	GSM336333-PolII-rep4.sga	PolII rep4	PolII	GSM336333
11	GSM336334-Ste12-rep1.sga	Ste12 rep1	Ste12	GSM336334
12	GSM336334-Ste12-rep2.sga	Ste12 rep2	Ste12	GSM336334
13	GSM336334-Ste12-rep3.sga	Ste12 rep3	Ste12	GSM336334
14	GSM336335-Cse4-rep1.sga	Cse4 rep1	Cse4	GSM336335
15	GSM336335-Cse4-rep2.sga	Cse4 rep2	Cse4	GSM336335
16	GSM336335-Cse4-rep3.sga	Cse4 rep3	Cse4	GSM336335
17	GSM336336-Input-ACGT.sga	Input ACGT rep1	Input	GSM336336
18	GSM336337-Input-ACGT.sga	Input ACGT rep2	Input	GSM336337
19	GSM336338-Input-ACGT.sga	Input ACGT rep3	Input	GSM336338
20	GSM336337-Input-CATT.sga	Input CATT rep1	Input	GSM336337
21	GSM336338-Input-CATT.sga	Input CATT rep2	Input	GSM336338
22	GSM336337-Input-GTAT.sga	Input GTAT	Input	GSM336337
23	GSM336337-Input-TGCT.sga	Input TGCT	Input	GSM336337
24	GSM336337-Input-NB.sga	Input NB rep1	Input	GSM336337
25	GSM336338-Input-NB.sga	Input NB rep2	Input	GSM336338

The original eland results have been converted to sga using in house software and have been merged sample by sample.

• Lefrançois P, Euskirchen GM, Auerbach RK, Rozowsky J, Gibson T, Yellman CM, Gerstein M, Snyder M
  Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing. BMC Genomics. 2009 Jan 21;10:37. doi: 10.1186/1471-2164-10-37. 19159457
• GEO series GSE13322: Efficient Yeast ChIP-Seq using Multiplex Short-Read DNA Sequencing