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 Rv0245/-:

update plot	correlation	link to info on gene
Rv3261/fbiA	(cc=0.5779)	info on Rv3261/fbiA
Rv1638/uvrA	(cc=0.5592)	info on Rv1638/uvrA
Rv1364c/-	(cc=0.5287)	info on Rv1364c/-
Rv0003/recF	(cc=0.5149)	info on Rv0003/recF
Rv2737c/recA	(cc=0.5105)	info on Rv2737c/recA
Rv0324/-	(cc=0.5084)	info on Rv0324/-
Rv3270/ctpC	(cc=0.4926)	info on Rv3270/ctpC
Rv3417c/groEL1	(cc=0.4919)	info on Rv3417c/groEL1
Rv3269/-	(cc=0.488)	info on Rv3269/-
Rv2259/mscR	(cc=0.4857)	info on Rv2259/mscR

Correlation of Rv0245/- with Rv3270/ctpC

Normalized LFCs for Rv0245/-:
(description and provenance of datasets)

	Rv0245/-	Rv3270/ctpC
Fe_supp_jason_reseq	2.145	1.994
low_pH_jason_reseq	-0.592	2.352
NO_jason_reseq	1.005	-2.263
B6_jason_reseq	-1.334	0.078
MHCII_jason_reseq	-0.804	0.0
Isoniazid02	0.134	1.371
Rifampicin4	0.91	1.454
Ethambutol3	-0.384	-0.931
Meropenem3	0.069	1.563
Vancomycin16	1.677	-0.154
Rv2680_day32	1.357	0.588
H37Rv_KO_MarP	-0.508	-1.806
hypoxia_3wks	-0.427	-3.72
hypoxia_6wks	-0.796	-1.948
glycerol	2.836	2.519
cholesterol	-0.132	2.06
AJ	0.983	0.442
Bibs02	-0.348	0.0
Bibs02c	0.629	0.0
BL6	0.456	0.439
BL6a	1.679	1.217
BXD01	1.457	0.64
BXD010	0.871	0.0
BXD011	1.306	0.54
BXD03	0.92	0.0
BXD04	1.184	0.0
BXD05	1.032	0.256
BXD06	1.57	0.741
BXD07	1.668	0.38
BXD08	0.564	0.467
BXD09	1.941	0.596
CAST	0.192	0.23
CCcont	4.343	3.303
DS01	1.261	2.452
DS02	0.35	2.782
DS04	2.389	1.192
DS0c	0.79	1.204
GP01	0.159	0.0
GP02	-0.159	0.0
GP0c	1.151	0.0
NOD	0.0	0.0
NZO	0.727	1.225
PWK	0.315	1.52
H37Rv_KO_CtpC	-0.148	0.162
H37Rv_KO_CtpD	0.676	0.127
H37Rv_KO_Rv1272	-0.269	0.269
H37Rv_KO_SugABC	2.205	2.444
H37Rv_KO_MbtN	0.603	1.319
Trans05	0.698	0.249
macrophage_unactivated	1.098	-1.31
IL1	-2.251	-1.528
Rapamycin	0.0	-0.466
Tcell	-1.496	-1.352
GMCSF	0.779	-0.401
IFNab	0.193	0.212
IFNg	-1.743	-0.406
IFNg_GMCSF1	1.093	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	2.829	1.422
secA2_input	-1.007	0.16
delta_Rv3594	1.504	0.064
delta_Rv3717	-1.058	-0.092
delta_Rv3811	0.983	0.454
delta_Rv0954	1.292	-0.811
PonA1	1.549	-0.364
EccD1_KO	0.112	0.079
EspI_KO	1.486	-0.667
PE35_KO	2.529	0.767
PPE68_KO	1.475	0.224
glycerol2	-0.394	-0.509
lignocerate	-0.303	0.6
oleate	-0.991	-1.494
phosphatidylcholine	-1.0	-0.413
acetate	0.66	1.478
glucAc	0.793	1.563
Rv0950ko	0.03	-0.347
Rv1096ko	-0.838	-0.259
Rv3684ko	0.612	0.432
delta_otsA_trehalose	-0.11	-1.453