TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2504c/scoA:

update plot	correlation	link to info on gene
Rv0690c/-	(cc=0.5398)	info on Rv0690c/-
Rv3055/-	(cc=0.505)	info on Rv3055/-
Rv1164/narI	(cc=0.4741)	info on Rv1164/narI
Rv1147/-	(cc=0.4527)	info on Rv1147/-
Rv2652c/-	(cc=0.4505)	info on Rv2652c/-
Rv2359/zur	(cc=0.4502)	info on Rv2359/zur
Rv1288/-	(cc=0.4457)	info on Rv1288/-
Rv1674c/-	(cc=0.4385)	info on Rv1674c/-
Rv1482c/-	(cc=0.4327)	info on Rv1482c/-
Rv3074/-	(cc=0.4309)	info on Rv3074/-

Correlation of Rv2504c/scoA with Rv1147/-

Normalized LFCs for Rv2504c/scoA:
(description and provenance of datasets)

	Rv2504c/scoA	Rv1147/-
Fe_supp_jason_reseq	-0.328	-0.039
low_pH_jason_reseq	-0.776	-0.368
NO_jason_reseq	0.131	-0.131
B6_jason_reseq	-0.721	-0.353
MHCII_jason_reseq	-0.008	-0.281
Isoniazid02	0.0	0.326
Rifampicin4	0.0	0.536
Ethambutol3	2.285	2.456
Meropenem3	1.282	-0.47
Vancomycin16	0.446	0.478
Rv2680_day32	0.02	-0.257
H37Rv_KO_MarP	-0.409	0.316
hypoxia_3wks	0.638	0.475
hypoxia_6wks	0.906	0.461
glycerol	-1.024	-0.462
cholesterol	-0.541	0.315
AJ	0.133	-0.602
Bibs02	-0.823	-0.338
Bibs02c	-0.259	-0.591
BL6	0.412	0.492
BL6a	-0.329	-0.188
BXD01	0.328	-0.746
BXD010	-0.303	0.46
BXD011	0.524	0.138
BXD03	0.227	-0.26
BXD04	-0.065	-0.093
BXD05	-0.489	-0.446
BXD06	0.191	0.23
BXD07	-0.01	0.017
BXD08	0.173	0.914
BXD09	-0.454	-0.332
CAST	-0.267	0.148
CCcont	0.306	-0.678
DS01	-0.352	0.66
DS02	-0.113	1.588
DS04	0.901	0.294
DS0c	-0.701	0.248
GP01	-0.737	1.042
GP02	0.781	0.567
GP0c	-0.099	0.439
NOD	-0.553	-0.617
NZO	0.348	-0.611
PWK	-0.325	0.307
H37Rv_KO_CtpC	-0.06	-0.187
H37Rv_KO_CtpD	-1.044	-1.179
H37Rv_KO_Rv1272	0.156	-0.467
H37Rv_KO_SugABC	-0.682	0.581
H37Rv_KO_MbtN	0.661	1.214
Trans05	0.396	0.069
macrophage_unactivated	-0.152	-0.903
IL1	-0.142	0.0
Rapamycin	0.641	0.525
Tcell	-0.218	-0.472
GMCSF	1.053	0.069
IFNab	0.0	-0.027
IFNg	0.788	-0.094
IFNg_GMCSF1	0.201	0.0
Rv1432_day32	0.422	1.754
Rv1565c_day32	2.104	1.249
secA2_input	0.985	1.171
delta_Rv3594	-0.772	-1.075
delta_Rv3717	-0.204	-0.51
delta_Rv3811	-1.52	0.146
delta_Rv0954	0.2	-0.238
PonA1	0.19	0.275
EccD1_KO	0.997	1.74
EspI_KO	1.135	1.246
PE35_KO	0.977	0.685
PPE68_KO	1.741	0.822
glycerol2	0.216	-0.279
lignocerate	0.934	-0.068
oleate	-0.102	-0.196
phosphatidylcholine	0.577	-0.16
acetate	0.239	-0.15
glucAc	0.522	-0.474
Rv0950ko	-0.546	-0.464
Rv1096ko	1.071	-1.273
Rv3684ko	-0.324	-1.248
delta_otsA_trehalose	-0.476	-0.339