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 Rv0532/PE_PGRS6

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

	Rv1155/-	Rv0532/PE_PGRS6
Fe_supp_jason_reseq	-0.442	-0.549
low_pH_jason_reseq	-0.524	-0.708
NO_jason_reseq	-0.074	-0.029
B6_jason_reseq	0.665	-0.538
MHCII_jason_reseq	0.712	1.151
Isoniazid02	0.263	3.355
Rifampicin4	0.057	0.988
Ethambutol3	0.863	2.926
Meropenem3	0.93	0.242
Vancomycin16	0.592	0.926
Rv2680_day32	-0.708	-0.23
H37Rv_KO_MarP	0.042	0.095
hypoxia_3wks	0.128	-0.163
hypoxia_6wks	-0.15	-0.355
glycerol	-0.294	0.162
cholesterol	0.302	0.145
AJ	0.124	0.165
Bibs02	0.666	0.268
Bibs02c	0.582	0.505
BL6	0.348	-0.013
BL6a	0.291	0.234
BXD01	-0.28	0.0
BXD010	-0.077	-0.478
BXD011	0.064	-0.494
BXD03	-0.261	-0.149
BXD04	0.295	0.225
BXD05	-0.259	-0.296
BXD06	0.473	-0.028
BXD07	0.079	0.215
BXD08	0.591	0.653
BXD09	0.347	-0.138
CAST	0.257	0.095
CCcont	-0.229	0.076
DS01	-0.284	0.19
DS02	0.039	0.578
DS04	1.583	0.578
DS0c	0.039	1.065
GP01	-0.756	0.362
GP02	-0.04	-0.841
GP0c	0.019	-0.041
NOD	0.854	-0.583
NZO	0.325	0.514
PWK	0.25	-0.617
H37Rv_KO_CtpC	-0.357	0.352
H37Rv_KO_CtpD	-0.392	-0.654
H37Rv_KO_Rv1272	-1.145	-0.405
H37Rv_KO_SugABC	0.734	-0.415
H37Rv_KO_MbtN	0.228	-0.022
Trans05	0.028	0.041
macrophage_unactivated	0.376	0.644
IL1	-0.05	0.572
Rapamycin	-0.313	0.344
Tcell	-0.081	-0.349
GMCSF	0.372	0.356
IFNab	0.218	-0.039
IFNg	0.377	0.484
IFNg_GMCSF1	0.572	0.314
Rv1432_day32	0.16	0.0
Rv1565c_day32	0.43	-0.422
secA2_input	-0.504	-0.474
delta_Rv3594	-0.024	0.47
delta_Rv3717	-0.32	0.301
delta_Rv3811	0.556	0.076
delta_Rv0954	0.079	-0.437
PonA1	-0.15	0.036
EccD1_KO	0.217	-0.296
EspI_KO	0.143	-0.593
PE35_KO	0.216	-0.233
PPE68_KO	0.109	-0.221
glycerol2	0.129	-0.025
lignocerate	-0.413	0.374
oleate	-1.049	-1.087
phosphatidylcholine	-0.585	0.531
acetate	0.705	0.607
glucAc	0.7	0.769
Rv0950ko	0.262	0.202
Rv1096ko	0.745	0.235
Rv3684ko	-0.599	0.36
delta_otsA_trehalose	-1.441	-0.756