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 Rv3635/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1736c/narX	(cc=0.5754)	info on Rv1736c/narX
Rv1291c/-	(cc=0.5603)	info on Rv1291c/-
Rv0218/-	(cc=0.5586)	info on Rv0218/-
Rv2831/echA16	(cc=0.5282)	info on Rv2831/echA16
Rv0377/-	(cc=0.5281)	info on Rv0377/-
Rv1716/-	(cc=0.5275)	info on Rv1716/-
Rv0233/nrdB	(cc=0.5156)	info on Rv0233/nrdB
Rv2385/mbtJ	(cc=0.5147)	info on Rv2385/mbtJ
Rv1775/-	(cc=0.5049)	info on Rv1775/-
Rv0433/-	(cc=0.4957)	info on Rv0433/-

Correlation of Rv3635/- with Rv1736c/narX

Normalized LFCs for Rv3635/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3635/-	Rv1736c/narX
Fe_supp_jason_reseq	0.442	-0.802
low_pH_jason_reseq	0.167	-0.196
NO_jason_reseq	0.507	-0.244
B6_jason_reseq	0.311	0.903
MHCII_jason_reseq	0.926	1.098
Isoniazid02	0.0	0.327
Rifampicin4	0.0	-0.168
Ethambutol3	0.168	0.465
Meropenem3	0.165	0.14
Vancomycin16	0.0	-0.082
Rv2680_day32	0.0	-0.104
H37Rv_KO_MarP	-0.162	-0.55
hypoxia_3wks	0.0	-0.307
hypoxia_6wks	-0.43	-0.666
glycerol	0.086	0.151
cholesterol	-0.203	-0.154
AJ	-0.698	0.044
Bibs02	-1.031	-0.136
Bibs02c	0.414	0.327
BL6	-1.144	-1.479
BL6a	-0.377	-0.555
BXD01	-1.062	-1.376
BXD010	-0.629	-0.816
BXD011	-1.039	-0.692
BXD03	-1.237	-1.244
BXD04	-0.896	-1.002
BXD05	-0.863	-0.764
BXD06	-0.967	-1.228
BXD07	-1.003	-0.846
BXD08	-0.75	-1.271
BXD09	-1.018	-1.412
CAST	0.284	-0.704
CCcont	-1.366	-2.033
DS01	-0.45	-0.104
DS02	-0.304	0.321
DS04	-0.271	-0.259
DS0c	0.0	-0.096
GP01	-0.633	-0.354
GP02	-0.761	0.318
GP0c	-1.19	-0.75
NOD	-0.428	-0.504
NZO	-0.6	-0.234
PWK	-0.706	-0.097
H37Rv_KO_CtpC	-1.041	-1.316
H37Rv_KO_CtpD	-0.622	-1.77
H37Rv_KO_Rv1272	0.469	-0.766
H37Rv_KO_SugABC	-0.906	-2.014
H37Rv_KO_MbtN	-0.437	-0.384
Trans05	-1.195	-0.349
macrophage_unactivated	-0.83	-0.764
IL1	-0.374	-0.451
Rapamycin	-0.807	0.196
Tcell	-0.411	-0.401
GMCSF	-0.694	-0.069
IFNab	-0.795	-0.547
IFNg	-0.337	-0.818
IFNg_GMCSF1	0.0	0.355
Rv1432_day32	-0.884	-0.554
Rv1565c_day32	1.339	1.025
secA2_input	-1.943	-0.856
delta_Rv3594	0.828	0.22
delta_Rv3717	0.0	0.0
delta_Rv3811	-0.205	0.617
delta_Rv0954	-0.178	0.186
PonA1	0.624	-0.152
EccD1_KO	-0.816	-0.092
EspI_KO	-1.258	-0.374
PE35_KO	-0.723	0.236
PPE68_KO	-0.793	-0.227
glycerol2	-1.208	-0.685
lignocerate	-1.218	-0.312
oleate	-0.588	-0.554
phosphatidylcholine	-1.032	-0.27
acetate	-1.433	-0.321
glucAc	-1.034	-0.31
Rv0950ko	-0.582	0.259
Rv1096ko	-0.28	0.461
Rv3684ko	0.285	0.0
delta_otsA_trehalose	0.0	0.371