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 Rv2838c/rbfA:

update plot	correlation	link to info on gene
Rv2966c/-	(cc=0.5375)	info on Rv2966c/-
Rv0806c/cpsY	(cc=0.5245)	info on Rv0806c/cpsY
Rv0813c/-	(cc=0.5227)	info on Rv0813c/-
Rv2827c/-	(cc=0.5033)	info on Rv2827c/-
Rv3266c/rmlD	(cc=0.4877)	info on Rv3266c/rmlD
Rv1829/-	(cc=0.4714)	info on Rv1829/-
Rv2245/kasA	(cc=0.4713)	info on Rv2245/kasA
Rv1003/-	(cc=0.4696)	info on Rv1003/-
Rv1075c/-	(cc=0.4627)	info on Rv1075c/-
Rv2837c/-	(cc=0.452)	info on Rv2837c/-

Correlation of Rv2838c/rbfA with Rv2837c/-

Normalized LFCs for Rv2838c/rbfA:
(description and provenance of datasets)

	Rv2838c/rbfA	Rv2837c/-
Fe_supp_jason_reseq	0.538	0.218
low_pH_jason_reseq	-0.167	0.0
NO_jason_reseq	0.244	0.0
B6_jason_reseq	-0.649	0.0
MHCII_jason_reseq	-0.572	0.0
Isoniazid02	0.0	0.0
Rifampicin4	0.653	0.0
Ethambutol3	0.764	0.0
Meropenem3	0.289	0.165
Vancomycin16	0.0	0.0
Rv2680_day32	-0.554	0.0
H37Rv_KO_MarP	-1.865	-3.961
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	-0.183	0.0
Bibs02c	-0.209	0.0
BL6	-0.125	0.0
BL6a	-0.198	0.198
BXD01	-0.13	0.0
BXD010	-0.128	0.0
BXD011	0.116	0.0
BXD03	-0.135	0.0
BXD04	-0.124	0.0
BXD05	-0.135	0.256
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	0.0	1.3
DS01	-0.236	0.0
DS02	0.199	0.0
DS04	0.339	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	0.116	0.348
H37Rv_KO_Rv1272	-0.141	0.0
H37Rv_KO_SugABC	0.321	0.0
H37Rv_KO_MbtN	0.469	0.691
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	-0.999	0.0
Rv1565c_day32	0.0	0.0
secA2_input	1.39	-0.65
delta_Rv3594	2.14	2.14
delta_Rv3717	2.82	1.339
delta_Rv3811	2.421	2.152
delta_Rv0954	2.31	0.699
PonA1	0.145	0.819
EccD1_KO	3.2	0.316
EspI_KO	2.193	0.14
PE35_KO	-1.263	-0.796
PPE68_KO	0.33	1.6
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	0.844	-3.302
Rv1096ko	-0.157	-2.747
Rv3684ko	-1.831	-0.881
delta_otsA_trehalose	-1.296	-0.168