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 Rv0024/-:

update plot	correlation	link to info on gene
Rv2980/-	(cc=0.5636)	info on Rv2980/-
Rv2426c/-	(cc=0.5343)	info on Rv2426c/-
Rv2378c/mbtG	(cc=0.5287)	info on Rv2378c/mbtG
Rv0964c/-	(cc=0.5137)	info on Rv0964c/-
Rv2474c/-	(cc=0.5114)	info on Rv2474c/-
Rv2599/-	(cc=0.5021)	info on Rv2599/-
Rv3056/dinP	(cc=0.4985)	info on Rv3056/dinP
Rv3536c/hsaE	(cc=0.4967)	info on Rv3536c/hsaE
Rv2380c/mbtE	(cc=0.4928)	info on Rv2380c/mbtE
Rv3058c/-	(cc=0.4896)	info on Rv3058c/-

Correlation of Rv0024/- with Rv2980/-

Normalized LFCs for Rv0024/-:
(description and provenance of datasets)

	Rv0024/-	Rv2980/-
Fe_supp_jason_reseq	-0.485	0.0
low_pH_jason_reseq	0.049	0.0
NO_jason_reseq	-0.68	0.0
B6_jason_reseq	0.136	0.0
MHCII_jason_reseq	0.111	0.0
Isoniazid02	-0.175	0.0
Rifampicin4	0.135	0.0
Ethambutol3	0.461	0.32
Meropenem3	-0.555	0.165
Vancomycin16	-0.43	0.0
Rv2680_day32	-0.965	0.0
H37Rv_KO_MarP	0.785	-0.371
hypoxia_3wks	-0.044	0.0
hypoxia_6wks	-0.487	0.0
glycerol	0.369	0.0
cholesterol	0.249	0.0
AJ	-0.261	0.0
Bibs02	0.384	0.0
Bibs02c	-0.362	0.0
BL6	-1.094	0.0
BL6a	0.013	0.0
BXD01	-0.773	0.0
BXD010	-0.116	0.0
BXD011	-0.403	0.0
BXD03	0.263	0.0
BXD04	0.176	0.0
BXD05	-0.036	0.0
BXD06	-0.307	0.0
BXD07	-0.115	0.0
BXD08	-0.19	0.0
BXD09	-0.288	0.0
CAST	-0.399	0.0
CCcont	-0.688	0.0
DS01	0.152	0.236
DS02	0.221	0.0
DS04	-0.43	0.194
DS0c	-0.891	0.0
GP01	-0.476	0.0
GP02	-0.565	0.0
GP0c	0.163	0.0
NOD	0.423	0.0
NZO	0.214	0.0
PWK	0.151	0.0
H37Rv_KO_CtpC	-0.347	0.0
H37Rv_KO_CtpD	0.93	0.0
H37Rv_KO_Rv1272	-0.459	0.0
H37Rv_KO_SugABC	0.534	0.0
H37Rv_KO_MbtN	-0.713	0.0
Trans05	-0.921	0.0
macrophage_unactivated	-0.436	0.0
IL1	-0.475	0.0
Rapamycin	-1.019	0.0
Tcell	-0.277	0.0
GMCSF	-0.224	0.0
IFNab	-0.925	0.0
IFNg	-0.15	0.0
IFNg_GMCSF1	-0.456	0.0
Rv1432_day32	-0.125	0.0
Rv1565c_day32	-0.175	0.0
secA2_input	0.726	2.043
delta_Rv3594	-0.665	0.0
delta_Rv3717	-0.715	0.0
delta_Rv3811	-0.922	-0.205
delta_Rv0954	0.076	0.0
PonA1	0.361	0.402
EccD1_KO	1.72	2.23
EspI_KO	0.607	1.081
PE35_KO	1.21	1.978
PPE68_KO	1.593	2.963
glycerol2	0.513	0.0
lignocerate	0.776	0.0
oleate	0.335	0.0
phosphatidylcholine	0.443	0.0
acetate	1.716	0.0
glucAc	1.099	0.0
Rv0950ko	1.028	1.049
Rv1096ko	0.576	1.05
Rv3684ko	0.305	0.413
delta_otsA_trehalose	-0.356	0.0