Adjalley 2016, 5p-CAP sequencing at six time points during the IDC of Plasmodium falciparum.

Transcript 5' ends at different stages of the 48-hour intra-erythrocytic developmental cycle (IDC) in P. falciparum were systematically characterized using 5' cap sequencing, a modified version of the CAGE approach.

• Raw data was downloaded from: FTP at GEO (GSE68982)
• Input file format: BEDGRAPH
• Download date: 3-10-2018

From P. falciparum (Apr 2016 ASM276v2/pfa2).

Transcription Profiling data:

	Filename	Description	Feature	GEO-ID
1	GSE68982_allSamples.sga	IDC|5-cap|all samples	5CAP	GSE68982_allSamples
2	GSM1689659.sga	IDC|5-cap|2h|rep1	5CAP	GSM1689659
3	GSM1689660.sga	IDC|5-cap|10h|rep1	5CAP	GSM1689660
4	GSM1689661.sga	IDC|5-cap|18h|rep1	5CAP	GSM1689661
5	GSM1689662.sga	IDC|5-cap|26h|rep1	5CAP	GSM1689662
6	GSM1689663.sga	IDC|5-cap|34h|rep1	5CAP	GSM1689663
7	GSM1689664.sga	IDC|5-cap|42h|rep1	5CAP	GSM1689664
8	GSM1689665.sga	IDC|5-cap|2h|rep2	5CAP	GSM1689665
9	GSM1689666.sga	IDC|5-cap|10h|rep2	5CAP	GSM1689666
10	GSM1689667.sga	IDC|5-cap|18h|rep2	5CAP	GSM1689667
11	GSM1689668.sga	IDC|5-cap|26h|rep2	5CAP	GSM1689668
12	GSM1689669.sga	IDC|5-cap|34h|rep2	5CAP	GSM1689669
13	GSM1689670.sga	IDC|5-cap|42h|rep2	5CAP	GSM1689670

BEDGRAPH files were first converted to BED by merging both strands, and subsequently converted to SGA format using bed2sga (ChIP-Seq v. 1.5.4).

• Adjalley SH, Chabbert CD, Klaus B, Pelechano V, Steinmetz LM
  Landscape and Dynamics of Transcription Initiation in the Malaria Parasite Plasmodium falciparum. Cell Rep. 2016 Mar 15;14(10):2463-75. doi: 10.1016/j.celrep.2016.02.025. Epub 2016 Mar 3. 26947071
• GEO series GSE68982: Landscape and dynamics of transcription initiation in P. falciparum