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SRX1032467: GSM1689668: repB_TP4; Plasmodium falciparum; OTHER
1 ILLUMINA (Illumina HiSeq 2000) run: 14.5M spots, 2.9G bases, 1.6Gb downloads

Submitted by: Gene Expression Omnibus (GEO)
Study: Landscape and dynamics of transcription initiation in P. falciparum
show Abstracthide Abstract
The lack of a comprehensive map of transcription start sites (TSS) across P. falciparum genome has hampered advances in decrypting the molecular mechanisms underlying regulation of gene expression in the malaria parasite. In eukaryotic model organisms, development of genome-wide approaches and next-generation sequencing technologies has contributed to a better understanding of the impact of local nucleotide composition on transcriptional regulation. Using such methods, we generated a single nucleotide-resolution map of transcription initiation events during P. falciparum intra-erythrocytic developmental cycle. Overall design: Examination of transcription start site during the intra-erythorcytic development of the human parasite Plasmodium falciparum
Sample: repB_TP4
SAMN03700564 • SRS940095 • All experiments • All runs
Library:
Instrument: Illumina HiSeq 2000
Strategy: OTHER
Source: TRANSCRIPTOMIC
Selection: other
Layout: PAIRED
Construction protocol: Total RNA was isolated as previously reported (Kyes at al, 2000). RNA samples were then treated with Terminator 5‘-Phosphate-Dependent Exonuclease. rRNA-depleted RNA was treated with of Calf Intestinal Alkaline Phosphatase (New England BioLabs). CIP-treated RNA was then incubated with Tobacco Acid Pyrophosphatase andincubated overnight with RNA adapters and T4 RNA ligase. RNA was chemically fragmented and reverse transcribed. cDNA second strand was synthesised using biotinylated primers. DNA libraries were constructed using the standard Illumina protocol and amplified with the KAPA HiFi HotStart ReadyMix.
Experiment attributes:
GEO Accession: GSM1689668
Links:
External link:
Runs: 1 run, 14.5M spots, 2.9G bases, 1.6Gb
Run# of Spots# of BasesSizePublished
SRR203197414,487,1742.9G1.6Gb2016-03-04

ID:
1496024

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