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 Rv1081c/-:

update plot	correlation	link to info on gene
Rv0537c/-	(cc=0.5682)	info on Rv0537c/-
Rv3067/-	(cc=0.5503)	info on Rv3067/-
Rv0062/celA1	(cc=0.5082)	info on Rv0062/celA1
Rv0538/-	(cc=0.4837)	info on Rv0538/-
Rv1458c/-	(cc=0.4693)	info on Rv1458c/-
Rv2908c/-	(cc=0.4638)	info on Rv2908c/-
Rv2375/-	(cc=0.4553)	info on Rv2375/-
Rv3916c/-	(cc=0.4543)	info on Rv3916c/-
Rv1845c/blaR	(cc=0.4414)	info on Rv1845c/blaR
Rv2926c/-	(cc=0.4261)	info on Rv2926c/-

Correlation of Rv1081c/- with Rv2908c/-

Normalized LFCs for Rv1081c/-:
(description and provenance of datasets)

	Rv1081c/-	Rv2908c/-
Fe_supp_jason_reseq	0.415	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	-0.65	0.0
Rifampicin4	-0.872	0.374
Ethambutol3	0.22	2.247
Meropenem3	-0.386	0.165
Vancomycin16	-1.186	0.0
Rv2680_day32	0.095	0.0
H37Rv_KO_MarP	2.237	2.492
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.398	0.145
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.125	0.0
BL6a	0.198	0.0
BXD01	0.13	0.0
BXD010	0.0	0.0
BXD011	0.54	0.0
BXD03	0.0	0.0
BXD04	0.124	0.0
BXD05	0.473	0.0
BXD06	0.366	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.494	0.0
CAST	0.0	0.0
CCcont	0.285	0.149
DS01	0.0	0.0
DS02	0.0	0.217
DS04	0.37	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	0.0
NZO	0.0	0.199
PWK	0.0	0.0
H37Rv_KO_CtpC	0.798	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.633	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	0.739	0.0
delta_Rv3594	-1.205	-0.176
delta_Rv3717	-0.555	-0.477
delta_Rv3811	-0.369	-0.564
delta_Rv0954	-0.207	-0.49
PonA1	0.389	1.601
EccD1_KO	0.286	0.0
EspI_KO	-0.55	0.0
PE35_KO	0.0	0.403
PPE68_KO	-0.298	0.0
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.63
glucAc	0.0	0.0
Rv0950ko	0.0	0.727
Rv1096ko	-0.302	0.38
Rv3684ko	1.117	0.789
delta_otsA_trehalose	-1.098	0.254