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 Rv3657c/-:

update plot	correlation	link to info on gene
Rv2656c/-	(cc=0.47)	info on Rv2656c/-
Rv2401/-	(cc=0.4504)	info on Rv2401/-
Rv2398c/cysW	(cc=0.4275)	info on Rv2398c/cysW
Rv0805/-	(cc=0.418)	info on Rv0805/-
Rv2512c/-	(cc=0.4095)	info on Rv2512c/-
Rv1199c/-	(cc=0.4086)	info on Rv1199c/-
Rv2840c/-	(cc=0.4084)	info on Rv2840c/-
Rv2335/cysE	(cc=0.4)	info on Rv2335/cysE
Rv3527/-	(cc=0.3993)	info on Rv3527/-
Rv2793c/truB	(cc=0.3839)	info on Rv2793c/truB

Correlation of Rv3657c/- with Rv2656c/-

Normalized LFCs for Rv3657c/-:
(description and provenance of datasets)

	Rv3657c/-	Rv2656c/-
Fe_supp_jason_reseq	-0.878	-0.043
low_pH_jason_reseq	1.745	0.045
NO_jason_reseq	-1.244	1.738
B6_jason_reseq	-0.317	1.599
MHCII_jason_reseq	-0.503	0.99
Isoniazid02	0.0	0.354
Rifampicin4	0.382	0.39
Ethambutol3	0.86	2.977
Meropenem3	0.345	0.139
Vancomycin16	0.218	0.04
Rv2680_day32	0.821	0.658
H37Rv_KO_MarP	0.471	0.107
hypoxia_3wks	0.0	-0.801
hypoxia_6wks	-0.332	0.121
glycerol	1.752	1.04
cholesterol	0.859	0.209
AJ	-0.146	1.768
Bibs02	-1.325	0.042
Bibs02c	0.0	-0.221
BL6	-1.07	0.18
BL6a	0.284	0.573
BXD01	-0.264	1.882
BXD010	1.332	1.409
BXD011	-0.123	2.756
BXD03	1.226	1.517
BXD04	0.933	2.194
BXD05	1.055	2.084
BXD06	0.422	1.44
BXD07	1.065	1.547
BXD08	0.358	1.072
BXD09	0.733	1.736
CAST	0.976	3.48
CCcont	-1.278	0.606
DS01	0.799	0.108
DS02	1.972	0.099
DS04	1.012	1.158
DS0c	0.479	1.023
GP01	-1.164	-0.707
GP02	-1.064	-1.661
GP0c	-0.082	-0.291
NOD	0.0	1.103
NZO	0.63	1.699
PWK	0.706	1.8
H37Rv_KO_CtpC	-0.213	2.318
H37Rv_KO_CtpD	0.0	1.646
H37Rv_KO_Rv1272	1.146	1.626
H37Rv_KO_SugABC	0.03	1.237
H37Rv_KO_MbtN	-0.747	-0.55
Trans05	0.752	2.493
macrophage_unactivated	-1.051	0.347
IL1	-0.608	1.593
Rapamycin	-0.555	0.534
Tcell	-0.358	0.541
GMCSF	0.217	0.158
IFNab	0.816	1.058
IFNg	-0.294	1.371
IFNg_GMCSF1	-0.204	1.207
Rv1432_day32	0.0	0.207
Rv1565c_day32	-0.58	0.054
secA2_input	1.171	1.119
delta_Rv3594	-0.954	-0.974
delta_Rv3717	-0.101	-1.013
delta_Rv3811	-1.115	-1.423
delta_Rv0954	-1.622	-0.204
PonA1	0.088	-0.652
EccD1_KO	0.365	2.345
EspI_KO	-0.083	0.416
PE35_KO	0.085	0.201
PPE68_KO	2.054	1.449
glycerol2	-1.188	-0.168
lignocerate	-0.442	0.472
oleate	-1.007	-0.841
phosphatidylcholine	-0.819	0.123
acetate	0.788	0.806
glucAc	-0.877	0.641
Rv0950ko	-0.193	-0.259
Rv1096ko	-0.947	-1.258
Rv3684ko	-1.428	-1.087
delta_otsA_trehalose	0.214	0.114