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 Rv3074/-

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

	Rv2504c/scoA	Rv3074/-
Fe_supp_jason_reseq	-0.328	-0.12
low_pH_jason_reseq	-0.776	0.293
NO_jason_reseq	0.131	-0.252
B6_jason_reseq	-0.721	-0.118
MHCII_jason_reseq	-0.008	-0.113
Isoniazid02	0.0	0.332
Rifampicin4	0.0	1.438
Ethambutol3	2.285	0.348
Meropenem3	1.282	0.313
Vancomycin16	0.446	0.844
Rv2680_day32	0.02	0.361
H37Rv_KO_MarP	-0.409	0.144
hypoxia_3wks	0.638	0.494
hypoxia_6wks	0.906	0.871
glycerol	-1.024	-0.704
cholesterol	-0.541	0.01
AJ	0.133	0.276
Bibs02	-0.823	-0.657
Bibs02c	-0.259	-0.483
BL6	0.412	-0.361
BL6a	-0.329	-0.121
BXD01	0.328	0.543
BXD010	-0.303	-0.25
BXD011	0.524	-0.098
BXD03	0.227	-0.5
BXD04	-0.065	-0.833
BXD05	-0.489	0.195
BXD06	0.191	-0.168
BXD07	-0.01	-0.162
BXD08	0.173	0.219
BXD09	-0.454	-0.447
CAST	-0.267	-0.234
CCcont	0.306	0.117
DS01	-0.352	-1.109
DS02	-0.113	0.047
DS04	0.901	-0.396
DS0c	-0.701	0.383
GP01	-0.737	0.036
GP02	0.781	-0.884
GP0c	-0.099	-0.413
NOD	-0.553	-0.583
NZO	0.348	-0.302
PWK	-0.325	0.168
H37Rv_KO_CtpC	-0.06	0.149
H37Rv_KO_CtpD	-1.044	-0.128
H37Rv_KO_Rv1272	0.156	-0.226
H37Rv_KO_SugABC	-0.682	-1.711
H37Rv_KO_MbtN	0.661	0.074
Trans05	0.396	0.668
macrophage_unactivated	-0.152	0.814
IL1	-0.142	-0.033
Rapamycin	0.641	0.62
Tcell	-0.218	0.658
GMCSF	1.053	-0.298
IFNab	0.0	-0.033
IFNg	0.788	0.385
IFNg_GMCSF1	0.201	1.348
Rv1432_day32	0.422	0.166
Rv1565c_day32	2.104	-0.978
secA2_input	0.985	0.711
delta_Rv3594	-0.772	-0.828
delta_Rv3717	-0.204	-0.106
delta_Rv3811	-1.52	-1.463
delta_Rv0954	0.2	-0.388
PonA1	0.19	-0.139
EccD1_KO	0.997	1.677
EspI_KO	1.135	1.095
PE35_KO	0.977	1.175
PPE68_KO	1.741	1.433
glycerol2	0.216	0.398
lignocerate	0.934	0.558
oleate	-0.102	0.121
phosphatidylcholine	0.577	0.604
acetate	0.239	0.02
glucAc	0.522	0.304
Rv0950ko	-0.546	-0.103
Rv1096ko	1.071	0.229
Rv3684ko	-0.324	0.0
delta_otsA_trehalose	-0.476	-1.154