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 Rv0053/rpsF:

update plot	correlation	link to info on gene
Rv3228/-	(cc=0.5477)	info on Rv3228/-
Rv3060c/-	(cc=0.5362)	info on Rv3060c/-
Rv2907c/rimM	(cc=0.5361)	info on Rv2907c/rimM
Rv3276c/purK	(cc=0.5335)	info on Rv3276c/purK
Rv0806c/cpsY	(cc=0.526)	info on Rv0806c/cpsY
Rv3032/-	(cc=0.5098)	info on Rv3032/-
Rv2971/-	(cc=0.5071)	info on Rv2971/-
Rv0348/-	(cc=0.4916)	info on Rv0348/-
Rv2913c/-	(cc=0.4889)	info on Rv2913c/-
Rv2042c/-	(cc=0.4828)	info on Rv2042c/-

Correlation of Rv0053/rpsF with Rv3276c/purK

Normalized LFCs for Rv0053/rpsF:
(description and provenance of datasets)

	Rv0053/rpsF	Rv3276c/purK
Fe_supp_jason_reseq	0.0	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-1.379	-0.146
Rifampicin4	-1.373	-1.21
Ethambutol3	3.122	2.247
Meropenem3	1.198	-0.701
Vancomycin16	0.883	-0.854
Rv2680_day32	0.0	-0.131
H37Rv_KO_MarP	0.793	0.423
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.385
cholesterol	0.0	0.89
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.209
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.0	0.0
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.194	0.0
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.428
NZO	0.0	0.0
PWK	0.0	0.539
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.348	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.0
H37Rv_KO_MbtN	0.103	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.122	0.593
delta_Rv3594	1.53	0.211
delta_Rv3717	1.513	0.0
delta_Rv3811	0.87	0.391
delta_Rv0954	1.852	0.0
PonA1	0.0	0.0
EccD1_KO	0.414	0.454
EspI_KO	1.791	0.0
PE35_KO	1.832	1.105
PPE68_KO	1.113	1.213
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	0.0	0.416
Rv1096ko	0.0	1.143
Rv3684ko	1.444	2.509
delta_otsA_trehalose	0.254	0.0