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/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

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 Rv3261/fbiA

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

Comparison of LFCs between selected condtions.

condition	Rv0245/-	Rv3261/fbiA
Fe_supp_jason_reseq	2.145	2.742
low_pH_jason_reseq	-0.592	1.772
NO_jason_reseq	1.005	-0.331
B6_jason_reseq	-1.334	-0.292
MHCII_jason_reseq	-0.804	-0.257
Isoniazid02	0.134	2.648
Rifampicin4	0.91	-1.042
Ethambutol3	-0.384	1.008
Meropenem3	0.069	-1.611
Vancomycin16	1.677	-1.295
Rv2680_day32	1.357	-0.249
H37Rv_KO_MarP	-0.508	-1.647
hypoxia_3wks	-0.427	-1.543
hypoxia_6wks	-0.796	-1.599
glycerol	2.836	4.014
cholesterol	-0.132	3.239
AJ	0.983	0.442
Bibs02	-0.348	0.642
Bibs02c	0.629	1.028
BL6	0.456	0.125
BL6a	1.679	1.099
BXD01	1.457	0.0
BXD010	0.871	0.0
BXD011	1.306	0.54
BXD03	0.92	0.258
BXD04	1.184	0.607
BXD05	1.032	0.369
BXD06	1.57	0.967
BXD07	1.668	0.264
BXD08	0.564	0.0
BXD09	1.941	0.386
CAST	0.192	0.0
CCcont	4.343	3.917
DS01	1.261	2.946
DS02	0.35	0.217
DS04	2.389	1.504
DS0c	0.79	2.167
GP01	0.159	0.0
GP02	-0.159	0.0
GP0c	1.151	0.0
NOD	0.0	0.0
NZO	0.727	0.0
PWK	0.315	0.0
H37Rv_KO_CtpC	-0.148	0.446
H37Rv_KO_CtpD	0.676	0.778
H37Rv_KO_Rv1272	-0.269	0.387
H37Rv_KO_SugABC	2.205	0.906
H37Rv_KO_MbtN	0.603	0.572
Trans05	0.698	0.131
macrophage_unactivated	1.098	0.701
IL1	-2.251	-0.78
Rapamycin	0.0	-0.807
Tcell	-1.496	-0.411
GMCSF	0.779	-0.694
IFNab	0.193	-0.381
IFNg	-1.743	-0.337
IFNg_GMCSF1	1.093	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	2.829	2.178
secA2_input	-1.007	-1.085
delta_Rv3594	1.504	1.346
delta_Rv3717	-1.058	-0.81
delta_Rv3811	0.983	1.163
delta_Rv0954	1.292	2.602
PonA1	1.549	2.057
EccD1_KO	0.112	-0.678
EspI_KO	1.486	-0.465
PE35_KO	2.529	0.814
PPE68_KO	1.475	-0.125
glycerol2	-0.394	-1.81
lignocerate	-0.303	-3.276
oleate	-0.991	-4.009
phosphatidylcholine	-1.0	-3.961
acetate	0.66	0.256
glucAc	0.793	-0.131
Rv0950ko	0.03	-1.022
Rv1096ko	-0.838	-0.425
Rv3684ko	0.612	-0.711
delta_otsA_trehalose	-0.11	-0.928