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 Rv1697/-:

update plot	correlation	link to info on gene
Rv3410c/guaB3	(cc=0.6225)	info on Rv3410c/guaB3
Rv1290c/-	(cc=0.5951)	info on Rv1290c/-
Rv2393/che1	(cc=0.5683)	info on Rv2393/che1
Rv1495/mazF4	(cc=0.5604)	info on Rv1495/mazF4
Rv3906c/-	(cc=0.5534)	info on Rv3906c/-
Rv3754/tyrA	(cc=0.5337)	info on Rv3754/tyrA
Rv2333c/stp	(cc=0.5208)	info on Rv2333c/stp
Rv1944c/-	(cc=0.5007)	info on Rv1944c/-
Rv2708c/-	(cc=0.4914)	info on Rv2708c/-
Rv1324/-	(cc=0.4914)	info on Rv1324/-

Correlation of Rv1697/- with Rv3410c/guaB3

Normalized LFCs for Rv1697/-:
(description and provenance of datasets)

	Rv1697/-	Rv3410c/guaB3
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	4.812	1.723
Rifampicin4	0.0	0.0
Ethambutol3	1.031	1.294
Meropenem3	0.0	-0.165
Vancomycin16	0.0	-0.366
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.195	-0.631
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.654	0.0
cholesterol	0.365	0.972
AJ	-0.232	0.0
Bibs02	-0.183	0.0
Bibs02c	-0.209	0.0
BL6	-0.125	0.0
BL6a	-0.198	0.0
BXD01	-0.13	0.0
BXD010	-0.128	0.0
BXD011	-0.127	0.0
BXD03	-0.135	0.0
BXD04	-0.124	0.0
BXD05	-0.135	0.0
BXD06	-0.133	0.0
BXD07	-0.138	0.0
BXD08	-0.133	0.0
BXD09	-0.14	0.0
CAST	-0.23	0.0
CCcont	-0.149	0.149
DS01	-0.236	0.0
DS02	-0.217	0.0
DS04	0.0	0.0
DS0c	-0.217	0.0
GP01	-0.099	0.0
GP02	-0.083	0.0
GP0c	-0.13	0.0
NOD	-0.225	0.0
NZO	-0.199	0.0
PWK	-0.196	0.0
H37Rv_KO_CtpC	-0.162	0.0
H37Rv_KO_CtpD	-0.127	0.0
H37Rv_KO_Rv1272	-0.141	0.0
H37Rv_KO_SugABC	1.916	0.0
H37Rv_KO_MbtN	0.26	0.103
Trans05	-0.131	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	-0.169	0.0
secA2_input	0.593	0.348
delta_Rv3594	0.0	0.211
delta_Rv3717	0.0	0.0
delta_Rv3811	0.205	0.0
delta_Rv0954	0.99	0.178
PonA1	0.0	0.0
EccD1_KO	0.0	-0.793
EspI_KO	0.0	-1.081
PE35_KO	0.0	0.601
PPE68_KO	0.841	0.0
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.229	0.0
glucAc	0.0	0.0
Rv0950ko	-1.348	-2.31
Rv1096ko	-0.302	-1.894
Rv3684ko	-1.464	-2.057
delta_otsA_trehalose	-0.133	-0.965