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 Rv0585c/-:

update plot	correlation	link to info on gene
Rv0992c/-	(cc=0.535)	info on Rv0992c/-
Rv0578c/PE_PGRS7	(cc=0.4363)	info on Rv0578c/PE_PGRS7
Rv0039c/-	(cc=0.4173)	info on Rv0039c/-
Rv2012/-	(cc=0.4104)	info on Rv2012/-
Rv0435c/-	(cc=0.4043)	info on Rv0435c/-
Rv2495c/bkdC	(cc=0.3948)	info on Rv2495c/bkdC
Rv0409/ackA	(cc=0.3946)	info on Rv0409/ackA
Rv0418/lpqL	(cc=0.3904)	info on Rv0418/lpqL
Rv2963/-	(cc=0.3903)	info on Rv2963/-
Rv0376c/-	(cc=0.379)	info on Rv0376c/-

Correlation of Rv0585c/- with Rv0418/lpqL

Normalized LFCs for Rv0585c/-:
(description and provenance of datasets)

	Rv0585c/-	Rv0418/lpqL
Fe_supp_jason_reseq	-0.751	-0.721
low_pH_jason_reseq	-0.564	-0.105
NO_jason_reseq	0.268	-0.459
B6_jason_reseq	-0.6	-0.445
MHCII_jason_reseq	0.361	0.712
Isoniazid02	0.242	0.981
Rifampicin4	0.187	0.319
Ethambutol3	-0.044	0.866
Meropenem3	1.24	3.701
Vancomycin16	0.183	0.459
Rv2680_day32	-0.345	-1.64
H37Rv_KO_MarP	0.501	1.348
hypoxia_3wks	0.307	-0.183
hypoxia_6wks	0.033	-0.685
glycerol	0.157	0.543
cholesterol	0.431	0.284
AJ	0.461	-0.192
Bibs02	0.576	1.069
Bibs02c	0.117	-0.073
BL6	0.496	-0.216
BL6a	0.43	-1.065
BXD01	-0.338	-1.278
BXD010	0.179	-1.018
BXD011	-0.03	-0.71
BXD03	0.216	-0.862
BXD04	-0.073	-1.143
BXD05	0.524	-0.674
BXD06	0.045	-1.197
BXD07	0.207	-0.668
BXD08	0.045	-1.09
BXD09	0.196	-0.783
CAST	0.128	-0.429
CCcont	-0.366	-0.361
DS01	0.936	0.717
DS02	0.775	0.97
DS04	0.252	-0.136
DS0c	0.79	-0.493
GP01	0.0	-0.034
GP02	-0.612	-1.034
GP0c	0.194	-0.604
NOD	-0.216	0.026
NZO	-0.094	-0.318
PWK	0.48	-0.649
H37Rv_KO_CtpC	0.16	-0.937
H37Rv_KO_CtpD	0.722	1.28
H37Rv_KO_Rv1272	1.153	0.25
H37Rv_KO_SugABC	-0.272	0.258
H37Rv_KO_MbtN	0.567	-1.244
Trans05	0.344	-0.433
macrophage_unactivated	-0.076	0.079
IL1	0.368	0.148
Rapamycin	0.175	0.847
Tcell	-0.567	-0.342
GMCSF	-0.095	-0.576
IFNab	-0.181	0.296
IFNg	0.094	-0.139
IFNg_GMCSF1	0.39	0.157
Rv1432_day32	0.456	-0.645
Rv1565c_day32	0.6	0.567
secA2_input	0.277	0.16
delta_Rv3594	-0.289	-1.94
delta_Rv3717	0.424	-1.487
delta_Rv3811	0.18	-1.975
delta_Rv0954	0.382	-0.505
PonA1	0.779	-0.993
EccD1_KO	0.0	0.25
EspI_KO	0.502	0.054
PE35_KO	-0.254	0.222
PPE68_KO	0.0	-0.458
glycerol2	-0.446	0.15
lignocerate	-0.021	-0.069
oleate	-0.51	-1.581
phosphatidylcholine	-0.146	-0.531
acetate	-0.392	0.941
glucAc	0.627	0.378
Rv0950ko	-0.063	0.238
Rv1096ko	1.526	0.573
Rv3684ko	0.639	0.383
delta_otsA_trehalose	-0.222	-0.081