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 Rv3636/-:

update plot	correlation	link to info on gene
Rv0446c/-	(cc=0.474)	info on Rv0446c/-
Rv0926c/-	(cc=0.4461)	info on Rv0926c/-
Rv0557/mgtA	(cc=0.4454)	info on Rv0557/mgtA
Rv3739c/PPE67	(cc=0.4134)	info on Rv3739c/PPE67
Rv0811c/-	(cc=0.4134)	info on Rv0811c/-
Rv1191/-	(cc=0.4036)	info on Rv1191/-
Rv3561/fadD3	(cc=0.4023)	info on Rv3561/fadD3
Rv3521/-	(cc=0.3937)	info on Rv3521/-
Rv0117/oxyS	(cc=0.3881)	info on Rv0117/oxyS
Rv3761c/fadE36	(cc=0.3846)	info on Rv3761c/fadE36

Correlation of Rv3636/- with Rv0811c/-

Normalized LFCs for Rv3636/-:
(description and provenance of datasets)

	Rv3636/-	Rv0811c/-
Fe_supp_jason_reseq	0.559	0.0
low_pH_jason_reseq	-0.032	0.0
NO_jason_reseq	1.391	0.0
B6_jason_reseq	0.093	0.0
MHCII_jason_reseq	0.991	0.0
Isoniazid02	0.288	0.0
Rifampicin4	0.707	0.0
Ethambutol3	0.136	0.0
Meropenem3	1.744	0.0
Vancomycin16	0.875	0.0
Rv2680_day32	-2.621	0.0
H37Rv_KO_MarP	0.831	0.371
hypoxia_3wks	0.315	0.0
hypoxia_6wks	-0.453	0.0
glycerol	1.059	0.0
cholesterol	-0.057	0.0
AJ	0.977	0.0
Bibs02	-0.766	0.0
Bibs02c	-0.418	0.0
BL6	-0.488	0.0
BL6a	-0.284	0.0
BXD01	0.873	0.0
BXD010	0.852	0.0
BXD011	0.591	0.0
BXD03	-0.509	0.0
BXD04	-0.012	0.0
BXD05	0.331	0.0
BXD06	0.349	0.0
BXD07	0.864	0.0
BXD08	0.585	0.0
BXD09	0.336	0.0
CAST	-0.232	0.0
CCcont	-0.231	0.0
DS01	0.195	0.0
DS02	0.274	0.0
DS04	0.357	0.0
DS0c	-0.385	0.0
GP01	-0.386	0.0
GP02	0.451	0.0
GP0c	0.798	0.0
NOD	-1.362	0.0
NZO	1.445	0.0
PWK	1.017	0.0
H37Rv_KO_CtpC	0.246	0.0
H37Rv_KO_CtpD	0.36	0.127
H37Rv_KO_Rv1272	0.909	0.598
H37Rv_KO_SugABC	0.206	0.0
H37Rv_KO_MbtN	0.407	0.0
Trans05	1.694	0.876
macrophage_unactivated	-0.041	0.0
IL1	0.62	0.0
Rapamycin	0.979	0.0
Tcell	0.492	0.0
GMCSF	0.301	0.0
IFNab	-0.248	0.0
IFNg	0.853	0.0
IFNg_GMCSF1	1.295	0.0
Rv1432_day32	-0.18	0.0
Rv1565c_day32	0.329	0.0
secA2_input	-0.675	0.157
delta_Rv3594	-1.104	-1.014
delta_Rv3717	-0.106	-1.165
delta_Rv3811	-0.462	-1.377
delta_Rv0954	0.49	-1.196
PonA1	-0.021	-1.069
EccD1_KO	-0.335	0.0
EspI_KO	0.251	0.0
PE35_KO	0.172	0.0
PPE68_KO	0.096	0.0
glycerol2	0.097	0.0
lignocerate	-0.077	0.0
oleate	0.62	0.0
phosphatidylcholine	0.06	0.0
acetate	-0.432	0.0
glucAc	-0.582	0.0
Rv0950ko	0.938	0.0
Rv1096ko	2.129	2.045
Rv3684ko	1.634	2.22
delta_otsA_trehalose	-1.138	0.0