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 Rv1082/mca:

update plot	correlation	link to info on gene
Rv3165c/-	(cc=0.4085)	info on Rv3165c/-
Rv1083/-	(cc=0.4038)	info on Rv1083/-
Rv2427c/proA	(cc=0.3975)	info on Rv2427c/proA
Rv1404/-	(cc=0.3864)	info on Rv1404/-
Rv3855/ethR	(cc=0.3736)	info on Rv3855/ethR
Rv2335/cysE	(cc=0.3678)	info on Rv2335/cysE
Rv0499/-	(cc=0.3634)	info on Rv0499/-
Rv0626/vapB5	(cc=0.3574)	info on Rv0626/vapB5
Rv3214/gpm2	(cc=0.3495)	info on Rv3214/gpm2
Rv3438/-	(cc=0.3384)	info on Rv3438/-

Correlation of Rv1082/mca with Rv0499/-

Normalized LFCs for Rv1082/mca:
(description and provenance of datasets)

	Rv1082/mca	Rv0499/-
Fe_supp_jason_reseq	1.88	0.152
low_pH_jason_reseq	1.504	0.209
NO_jason_reseq	-1.638	0.06
B6_jason_reseq	0.914	-0.542
MHCII_jason_reseq	0.26	-1.733
Isoniazid02	-0.976	0.319
Rifampicin4	0.179	0.609
Ethambutol3	0.632	0.331
Meropenem3	-0.229	0.152
Vancomycin16	-0.44	0.435
Rv2680_day32	-0.148	-0.46
H37Rv_KO_MarP	1.043	1.35
hypoxia_3wks	-0.55	0.032
hypoxia_6wks	0.601	0.451
glycerol	0.298	0.579
cholesterol	-0.435	-0.994
AJ	0.277	0.449
Bibs02	-1.476	-0.832
Bibs02c	-1.206	-0.746
BL6	0.661	0.127
BL6a	0.0	-0.362
BXD01	-0.085	-0.747
BXD010	0.596	-0.168
BXD011	0.069	0.816
BXD03	0.69	-0.135
BXD04	0.851	-0.108
BXD05	0.073	1.044
BXD06	-0.205	0.161
BXD07	0.48	0.255
BXD08	-0.204	-0.053
BXD09	0.328	0.534
CAST	0.259	-0.105
CCcont	0.601	0.453
DS01	-1.145	-2.19
DS02	0.035	-0.775
DS04	-0.464	-1.249
DS0c	-0.124	-0.896
GP01	0.513	0.998
GP02	-0.295	-0.608
GP0c	-0.211	0.499
NOD	0.088	0.465
NZO	0.978	-0.273
PWK	0.567	0.406
H37Rv_KO_CtpC	-0.405	-0.753
H37Rv_KO_CtpD	-0.278	0.014
H37Rv_KO_Rv1272	0.139	-0.998
H37Rv_KO_SugABC	1.05	-1.522
H37Rv_KO_MbtN	0.73	0.816
Trans05	0.137	-0.319
macrophage_unactivated	-0.098	0.96
IL1	0.673	0.65
Rapamycin	-0.77	1.096
Tcell	-0.365	-0.137
GMCSF	-0.166	0.869
IFNab	-0.438	0.819
IFNg	0.04	1.676
IFNg_GMCSF1	0.952	0.918
Rv1432_day32	0.348	-0.343
Rv1565c_day32	0.251	-0.321
secA2_input	0.161	0.0
delta_Rv3594	0.202	-0.899
delta_Rv3717	0.0	-0.008
delta_Rv3811	-0.308	0.248
delta_Rv0954	-0.698	0.844
PonA1	0.361	0.589
EccD1_KO	0.382	0.434
EspI_KO	0.0	-0.414
PE35_KO	0.117	0.184
PPE68_KO	-0.099	0.278
glycerol2	0.0	1.145
lignocerate	0.128	2.056
oleate	-2.325	-3.077
phosphatidylcholine	-1.02	0.431
acetate	1.794	2.519
glucAc	1.156	1.7
Rv0950ko	0.455	-0.597
Rv1096ko	-0.115	0.0
Rv3684ko	-0.157	-1.539
delta_otsA_trehalose	-1.089	0.999