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 Rv0690c/-:

update plot	correlation	link to info on gene
Rv2980/-	(cc=0.5539)	info on Rv2980/-
Rv2504c/scoA	(cc=0.5398)	info on Rv2504c/scoA
Rv3571/kshB	(cc=0.4989)	info on Rv3571/kshB
Rv2359/zur	(cc=0.4857)	info on Rv2359/zur
Rv1930c/-	(cc=0.4459)	info on Rv1930c/-
Rv3492c/-	(cc=0.4313)	info on Rv3492c/-
Rv1456c/-	(cc=0.4253)	info on Rv1456c/-
Rv3074/-	(cc=0.4227)	info on Rv3074/-
Rv3055/-	(cc=0.4211)	info on Rv3055/-
Rv0087/hycE	(cc=0.4174)	info on Rv0087/hycE

Correlation of Rv0690c/- with Rv2980/-

Normalized LFCs for Rv0690c/-:
(description and provenance of datasets)

	Rv0690c/-	Rv2980/-
Fe_supp_jason_reseq	-0.223	0.0
low_pH_jason_reseq	-0.663	0.0
NO_jason_reseq	-0.234	0.0
B6_jason_reseq	-0.28	0.0
MHCII_jason_reseq	-2.012	0.0
Isoniazid02	0.036	0.0
Rifampicin4	-0.39	0.0
Ethambutol3	1.099	0.32
Meropenem3	0.338	0.165
Vancomycin16	-0.032	0.0
Rv2680_day32	0.104	0.0
H37Rv_KO_MarP	0.669	-0.371
hypoxia_3wks	-0.211	0.0
hypoxia_6wks	0.635	0.0
glycerol	0.214	0.0
cholesterol	-0.171	0.0
AJ	-0.316	0.0
Bibs02	-0.351	0.0
Bibs02c	0.423	0.0
BL6	-0.205	0.0
BL6a	0.253	0.0
BXD01	-0.395	0.0
BXD010	0.05	0.0
BXD011	0.189	0.0
BXD03	-0.124	0.0
BXD04	-0.349	0.0
BXD05	-0.325	0.0
BXD06	0.0	0.0
BXD07	-0.512	0.0
BXD08	0.141	0.0
BXD09	-0.312	0.0
CAST	-0.152	0.0
CCcont	-0.061	0.0
DS01	-0.116	0.236
DS02	-0.46	0.0
DS04	-0.128	0.194
DS0c	-0.902	0.0
GP01	-0.2	0.0
GP02	-0.407	0.0
GP0c	-0.395	0.0
NOD	-0.129	0.0
NZO	-0.29	0.0
PWK	0.016	0.0
H37Rv_KO_CtpC	0.076	0.0
H37Rv_KO_CtpD	-1.329	0.0
H37Rv_KO_Rv1272	0.384	0.0
H37Rv_KO_SugABC	-1.945	0.0
H37Rv_KO_MbtN	1.325	0.0
Trans05	0.638	0.0
macrophage_unactivated	-0.657	0.0
IL1	0.638	0.0
Rapamycin	0.089	0.0
Tcell	-0.534	0.0
GMCSF	0.319	0.0
IFNab	0.057	0.0
IFNg	-0.708	0.0
IFNg_GMCSF1	0.434	0.0
Rv1432_day32	-0.897	0.0
Rv1565c_day32	0.27	0.0
secA2_input	1.767	2.043
delta_Rv3594	0.159	0.0
delta_Rv3717	-0.223	0.0
delta_Rv3811	-0.431	-0.205
delta_Rv0954	0.134	0.0
PonA1	1.12	0.402
EccD1_KO	1.105	2.23
EspI_KO	1.184	1.081
PE35_KO	1.488	1.978
PPE68_KO	1.533	2.963
glycerol2	0.046	0.0
lignocerate	0.432	0.0
oleate	-0.173	0.0
phosphatidylcholine	0.158	0.0
acetate	0.409	0.0
glucAc	0.497	0.0
Rv0950ko	0.13	1.049
Rv1096ko	0.467	1.05
Rv3684ko	-0.694	0.413
delta_otsA_trehalose	-0.391	0.0