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 Rv2296/-:

update plot	correlation	link to info on gene
Rv1733c/-	(cc=0.5323)	info on Rv1733c/-
Rv3120/-	(cc=0.5317)	info on Rv3120/-
Rv2042c/-	(cc=0.5277)	info on Rv2042c/-
Rv2827c/-	(cc=0.5051)	info on Rv2827c/-
Rv2599/-	(cc=0.4852)	info on Rv2599/-
Rv2980/-	(cc=0.4766)	info on Rv2980/-
Rv3736/-	(cc=0.4619)	info on Rv3736/-
Rv2639c/-	(cc=0.4577)	info on Rv2639c/-
Rv2174/mptA	(cc=0.4525)	info on Rv2174/mptA
Rv1646/PE17	(cc=0.4464)	info on Rv1646/PE17

Correlation of Rv2296/- with Rv2980/-

Normalized LFCs for Rv2296/-:
(description and provenance of datasets)

	Rv2296/-	Rv2980/-
Fe_supp_jason_reseq	0.044	0.0
low_pH_jason_reseq	-0.146	0.0
NO_jason_reseq	0.192	0.0
B6_jason_reseq	-0.606	0.0
MHCII_jason_reseq	-0.186	0.0
Isoniazid02	-0.017	0.0
Rifampicin4	0.152	0.0
Ethambutol3	0.058	0.32
Meropenem3	-0.133	0.165
Vancomycin16	-0.011	0.0
Rv2680_day32	0.351	0.0
H37Rv_KO_MarP	-0.102	-0.371
hypoxia_3wks	0.195	0.0
hypoxia_6wks	0.2	0.0
glycerol	0.0	0.0
cholesterol	-0.134	0.0
AJ	0.146	0.0
Bibs02	0.056	0.0
Bibs02c	0.199	0.0
BL6	-0.164	0.0
BL6a	0.0	0.0
BXD01	0.284	0.0
BXD010	0.005	0.0
BXD011	0.109	0.0
BXD03	-0.926	0.0
BXD04	-0.308	0.0
BXD05	0.659	0.0
BXD06	0.018	0.0
BXD07	0.069	0.0
BXD08	0.245	0.0
BXD09	-0.019	0.0
CAST	0.077	0.0
CCcont	-0.679	0.0
DS01	0.332	0.236
DS02	-0.496	0.0
DS04	-0.041	0.194
DS0c	0.707	0.0
GP01	-0.326	0.0
GP02	1.042	0.0
GP0c	0.061	0.0
NOD	0.709	0.0
NZO	-0.007	0.0
PWK	0.246	0.0
H37Rv_KO_CtpC	-0.194	0.0
H37Rv_KO_CtpD	0.131	0.0
H37Rv_KO_Rv1272	-0.322	0.0
H37Rv_KO_SugABC	0.325	0.0
H37Rv_KO_MbtN	-0.014	0.0
Trans05	-0.298	0.0
macrophage_unactivated	0.0	0.0
IL1	-0.528	0.0
Rapamycin	-0.074	0.0
Tcell	-0.371	0.0
GMCSF	-0.18	0.0
IFNab	-0.057	0.0
IFNg	0.283	0.0
IFNg_GMCSF1	-0.408	0.0
Rv1432_day32	0.233	0.0
Rv1565c_day32	0.287	0.0
secA2_input	0.477	2.043
delta_Rv3594	0.902	0.0
delta_Rv3717	0.464	0.0
delta_Rv3811	0.857	-0.205
delta_Rv0954	-0.045	0.0
PonA1	0.439	0.402
EccD1_KO	1.204	2.23
EspI_KO	0.73	1.081
PE35_KO	1.205	1.978
PPE68_KO	1.353	2.963
glycerol2	0.601	0.0
lignocerate	0.029	0.0
oleate	1.0	0.0
phosphatidylcholine	0.402	0.0
acetate	-0.289	0.0
glucAc	-0.705	0.0
Rv0950ko	0.368	1.049
Rv1096ko	-0.299	1.05
Rv3684ko	-0.373	0.413
delta_otsA_trehalose	-1.025	0.0