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 Rv1155/-:

update plot	correlation	link to info on gene
Rv0435c/-	(cc=0.4411)	info on Rv0435c/-
Rv3649/-	(cc=0.4171)	info on Rv3649/-
Rv1251c/-	(cc=0.4156)	info on Rv1251c/-
Rv0333/-	(cc=0.3964)	info on Rv0333/-
Rv3700c/-	(cc=0.3835)	info on Rv3700c/-
Rv2326c/-	(cc=0.3808)	info on Rv2326c/-
Rv2585c/-	(cc=0.3741)	info on Rv2585c/-
Rv1031/kdpC	(cc=0.354)	info on Rv1031/kdpC
Rv0063/-	(cc=0.3532)	info on Rv0063/-
Rv0532/PE_PGRS6	(cc=0.3515)	info on Rv0532/PE_PGRS6

Correlation of Rv1155/- with Rv2585c/-

Normalized LFCs for Rv1155/-:
(description and provenance of datasets)

	Rv1155/-	Rv2585c/-
Fe_supp_jason_reseq	-0.442	0.229
low_pH_jason_reseq	-0.524	-1.047
NO_jason_reseq	-0.074	-0.798
B6_jason_reseq	0.665	0.492
MHCII_jason_reseq	0.712	0.212
Isoniazid02	0.263	0.028
Rifampicin4	0.057	0.615
Ethambutol3	0.863	0.924
Meropenem3	0.93	0.945
Vancomycin16	0.592	0.127
Rv2680_day32	-0.708	0.151
H37Rv_KO_MarP	0.042	-0.913
hypoxia_3wks	0.128	-0.514
hypoxia_6wks	-0.15	-0.505
glycerol	-0.294	-0.092
cholesterol	0.302	0.846
AJ	0.124	0.519
Bibs02	0.666	0.616
Bibs02c	0.582	0.358
BL6	0.348	0.356
BL6a	0.291	0.505
BXD01	-0.28	0.008
BXD010	-0.077	0.812
BXD011	0.064	0.672
BXD03	-0.261	0.487
BXD04	0.295	0.17
BXD05	-0.259	0.746
BXD06	0.473	0.481
BXD07	0.079	0.367
BXD08	0.591	0.305
BXD09	0.347	0.441
CAST	0.257	0.143
CCcont	-0.229	-0.558
DS01	-0.284	0.217
DS02	0.039	0.109
DS04	1.583	0.617
DS0c	0.039	-0.099
GP01	-0.756	0.3
GP02	-0.04	0.091
GP0c	0.019	-0.276
NOD	0.854	0.628
NZO	0.325	0.298
PWK	0.25	1.131
H37Rv_KO_CtpC	-0.357	-1.125
H37Rv_KO_CtpD	-0.392	-0.715
H37Rv_KO_Rv1272	-1.145	-0.278
H37Rv_KO_SugABC	0.734	0.296
H37Rv_KO_MbtN	0.228	0.583
Trans05	0.028	0.476
macrophage_unactivated	0.376	0.316
IL1	-0.05	-0.374
Rapamycin	-0.313	-0.246
Tcell	-0.081	-0.632
GMCSF	0.372	1.17
IFNab	0.218	0.351
IFNg	0.377	0.436
IFNg_GMCSF1	0.572	1.144
Rv1432_day32	0.16	1.643
Rv1565c_day32	0.43	0.433
secA2_input	-0.504	-0.719
delta_Rv3594	-0.024	0.805
delta_Rv3717	-0.32	0.75
delta_Rv3811	0.556	0.516
delta_Rv0954	0.079	0.185
PonA1	-0.15	0.369
EccD1_KO	0.217	0.628
EspI_KO	0.143	0.408
PE35_KO	0.216	-0.327
PPE68_KO	0.109	0.067
glycerol2	0.129	-0.342
lignocerate	-0.413	-0.704
oleate	-1.049	0.312
phosphatidylcholine	-0.585	-0.668
acetate	0.705	-0.432
glucAc	0.7	-0.641
Rv0950ko	0.262	0.576
Rv1096ko	0.745	1.27
Rv3684ko	-0.599	1.238
delta_otsA_trehalose	-1.441	-0.21