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 Rv3007c/-:

update plot	correlation	link to info on gene
Rv0064A/vapB1	(cc=0.4545)	info on Rv0064A/vapB1
Rv0456c/echA2	(cc=0.4446)	info on Rv0456c/echA2
Rv1515c/-	(cc=0.419)	info on Rv1515c/-
Rv2804c/-	(cc=0.4133)	info on Rv2804c/-
Rv3215/entC	(cc=0.4128)	info on Rv3215/entC
Rv1730c/-	(cc=0.3998)	info on Rv1730c/-
Rv3917c/parB	(cc=0.3921)	info on Rv3917c/parB
Rv1465/-	(cc=0.3915)	info on Rv1465/-
Rv2454c/-	(cc=0.387)	info on Rv2454c/-
Rv3729/-	(cc=0.3846)	info on Rv3729/-

Correlation of Rv3007c/- with Rv3215/entC

Normalized LFCs for Rv3007c/-:
(description and provenance of datasets)

	Rv3007c/-	Rv3215/entC
Fe_supp_jason_reseq	-0.69	0.598
low_pH_jason_reseq	0.136	0.0
NO_jason_reseq	-0.168	0.0
B6_jason_reseq	0.09	0.0
MHCII_jason_reseq	0.131	0.0
Isoniazid02	-0.194	0.0
Rifampicin4	-0.114	0.0
Ethambutol3	0.203	0.0
Meropenem3	0.2	0.0
Vancomycin16	0.199	0.0
Rv2680_day32	0.922	0.0
H37Rv_KO_MarP	0.691	-0.535
hypoxia_3wks	0.267	0.0
hypoxia_6wks	0.113	0.0
glycerol	0.778	0.0
cholesterol	0.484	0.0
AJ	0.619	0.0
Bibs02	0.699	0.0
Bibs02c	0.153	0.0
BL6	-0.19	0.0
BL6a	0.034	0.0
BXD01	-0.018	0.0
BXD010	-0.478	0.0
BXD011	0.532	0.0
BXD03	-0.408	0.0
BXD04	0.008	0.0
BXD05	0.705	0.0
BXD06	0.19	0.0
BXD07	-0.019	0.0
BXD08	0.208	0.0
BXD09	0.152	0.0
CAST	0.596	0.0
CCcont	-0.048	0.0
DS01	-0.169	0.0
DS02	-0.091	0.0
DS04	0.35	0.0
DS0c	0.228	0.0
GP01	-0.031	0.0
GP02	0.254	0.083
GP0c	0.087	0.0
NOD	0.939	0.0
NZO	0.853	0.0
PWK	0.811	0.0
H37Rv_KO_CtpC	1.414	0.0
H37Rv_KO_CtpD	0.125	0.0
H37Rv_KO_Rv1272	0.225	0.0
H37Rv_KO_SugABC	0.73	0.0
H37Rv_KO_MbtN	-0.648	0.0
Trans05	-0.013	0.0
macrophage_unactivated	0.044	0.0
IL1	0.436	0.0
Rapamycin	-0.117	0.0
Tcell	0.381	0.0
GMCSF	0.251	0.0
IFNab	0.193	0.0
IFNg	0.291	0.0
IFNg_GMCSF1	-0.016	0.0
Rv1432_day32	0.424	0.0
Rv1565c_day32	0.033	0.0
secA2_input	-1.124	-2.237
delta_Rv3594	-0.021	0.34
delta_Rv3717	-0.082	0.145
delta_Rv3811	0.062	0.171
delta_Rv0954	0.214	-0.34
PonA1	0.772	1.222
EccD1_KO	0.424	0.0
EspI_KO	0.69	0.0
PE35_KO	0.111	0.0
PPE68_KO	0.141	0.0
glycerol2	0.895	0.0
lignocerate	1.022	0.0
oleate	0.499	0.0
phosphatidylcholine	0.868	0.0
acetate	0.115	0.0
glucAc	0.128	0.0
Rv0950ko	-0.555	-1.143
Rv1096ko	-0.745	-0.347
Rv3684ko	-0.927	-1.241
delta_otsA_trehalose	0.123	0.0