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 Rv1778c/-:

update plot	correlation	link to info on gene
Rv0526/-	(cc=0.4802)	info on Rv0526/-
Rv2169c/-	(cc=0.4488)	info on Rv2169c/-
Rv0781/ptrBa	(cc=0.4487)	info on Rv0781/ptrBa
Rv1752/-	(cc=0.434)	info on Rv1752/-
Rv1209/-	(cc=0.4316)	info on Rv1209/-
Rv1116/-	(cc=0.4252)	info on Rv1116/-
Rv3455c/truA	(cc=0.4214)	info on Rv3455c/truA
Rv1257c/-	(cc=0.4194)	info on Rv1257c/-
Rv3193c/-	(cc=0.4167)	info on Rv3193c/-
Rv2492/-	(cc=0.4111)	info on Rv2492/-

Correlation of Rv1778c/- with Rv0526/-

Normalized LFCs for Rv1778c/-:
(description and provenance of datasets)

	Rv1778c/-	Rv0526/-
Fe_supp_jason_reseq	1.766	0.0
low_pH_jason_reseq	1.456	0.0
NO_jason_reseq	1.578	0.0
B6_jason_reseq	-0.237	0.0
MHCII_jason_reseq	0.265	0.0
Isoniazid02	0.079	0.0
Rifampicin4	-1.208	0.0
Ethambutol3	1.375	0.0
Meropenem3	-0.69	0.0
Vancomycin16	-0.355	0.0
Rv2680_day32	-1.595	0.0
H37Rv_KO_MarP	-0.267	0.0
hypoxia_3wks	0.594	0.0
hypoxia_6wks	2.088	0.0
glycerol	-1.678	0.0
cholesterol	0.812	0.0
AJ	2.558	0.0
Bibs02	-0.744	0.0
Bibs02c	-0.071	0.0
BL6	1.505	0.0
BL6a	1.716	0.0
BXD01	1.324	0.0
BXD010	0.743	0.0
BXD011	1.006	0.0
BXD03	0.25	0.0
BXD04	1.637	0.0
BXD05	-0.248	0.0
BXD06	0.55	0.0
BXD07	1.91	0.0
BXD08	0.608	0.0
BXD09	0.22	0.0
CAST	0.0	0.0
CCcont	1.812	0.0
DS01	-0.164	0.0
DS02	-0.488	0.0
DS04	-0.992	0.0
DS0c	0.894	0.0
GP01	-0.749	0.0
GP02	-0.339	0.0
GP0c	1.182	0.0
NOD	-1.276	0.0
NZO	1.607	0.0
PWK	0.897	0.0
H37Rv_KO_CtpC	0.254	0.0
H37Rv_KO_CtpD	-1.256	0.0
H37Rv_KO_Rv1272	1.711	0.0
H37Rv_KO_SugABC	-1.171	0.0
H37Rv_KO_MbtN	-0.231	0.0
Trans05	-0.044	0.0
macrophage_unactivated	0.546	0.0
IL1	0.433	0.0
Rapamycin	1.7	0.0
Tcell	1.737	0.0
GMCSF	-0.52	0.0
IFNab	0.686	0.0
IFNg	-0.82	0.0
IFNg_GMCSF1	-0.845	0.0
Rv1432_day32	-0.258	0.0
Rv1565c_day32	-0.25	0.0
secA2_input	-0.759	-0.412
delta_Rv3594	-0.841	0.0
delta_Rv3717	-0.629	0.0
delta_Rv3811	0.834	0.205
delta_Rv0954	-0.243	0.0
PonA1	-1.978	0.0
EccD1_KO	0.865	0.0
EspI_KO	0.95	0.0
PE35_KO	1.295	0.767
PPE68_KO	1.213	0.442
glycerol2	-2.061	-1.499
lignocerate	-1.286	-1.303
oleate	-2.196	-1.517
phosphatidylcholine	-1.375	-1.499
acetate	-1.049	-1.779
glucAc	-1.301	-1.106
Rv0950ko	2.249	0.416
Rv1096ko	1.218	0.0
Rv3684ko	0.485	0.0
delta_otsA_trehalose	-0.77	0.0