Estimation of ribosome profiling performance and reproducibility at various levels of resolution

Biology Direct

Table 1 Dataset summary

Organism	Dataset	Condition	Treatment	Replicate	Type	Accession
C. elegans	Stadler_2011 [26]	L1	post CHX	rep1 rep2	biological	SRR405089 SRR405091-2
	Stadler_2012 [44]	L1	post CHX	rep1 rep2 rep3 rep4	biological	SRR522871 SRR522872 SRR522896 SRR522897
D. rerio	Bazzini_2012 [14]	WT, 2hpf WT, 6hpf	pre/post CHX	rep1 rep2 rep1 rep2	biological	SRR392998-9 SRR393000-1 SRR393006-7 SRR393008-9
E. coli	Li_2012 [36]	MOPS	post GMPPNP+ Chloramphenicol	rep1 rep2	biological	SRR407274-5 SRR407276-7
	Oh_2011 [23]	DSP	pre/post Chloramphenicol rapid filtration	rep1 rep2 rep3	biological	SRR364364 SRR364366 SRR364368
H. sapiens	Stadler_2011 [26]	HeLa, CHX	post CHX	rep1 rep2	technical	SRR407637 SRR407638
	Lee_2012 [54]	HEK293T, CHX	pre/post CHX	rep1 rep2	technical	SRR618770 SRR618771
	Liu_2013 [45]	HeLa-tTA, K71M	pre/post CHX	rep1 rep2	biological	SRR619099 SRR619100
	Stumpf_2013 [50]	HeLa, G1	pre/post CHX	rep1 rep2	biological	SRR970490 SRR970538
	Andreev_2015 [48]	HEK293T, control	post CHX	rep1 rep2	biological	SRR1173905 SRR1173909-10
M. musculus	Inoglia_2011 [38]	mESC, noLIF-36 h mESC, yesLIF	pre/post CHX	rep1 rep2 rep1 rep2 rep3	biological	SRR315620-2 SRR315623 SRR315601-2 SRR315624-6 SRR315627
S. cerevisiae	Ingolia_2009 [10]	YPD	pre/post CHX	rep1 rep2	biological	SRR014374-6 SRR014377-81
	Brar_2012 [12]	meiotic	pre/post CHX	rep1 rep2	biological	SRR387904 SRR387905
	Artieri_2014 [43]	YPD, mixed \w S. paradoxus	pre/post CHX	rep1 rep2	biological	SRR1040415 SRR1040423, SRR1040427
	McManus_2014 [49]	YPD	pre/post CHX	rep1 rep2	biological	SRR948553 SRR948555

Details for all analyzed datasets are provided. The Treatment column denotes which drug was used to arrest translation and whether it was added pre- and/or post-lysis

ISSN: 1745-6150