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 Rv2855/mtr:

update plot	correlation	link to info on gene
Rv1025/-	(cc=0.5004)	info on Rv1025/-
Rv2604c/snoP	(cc=0.486)	info on Rv2604c/snoP
Rv1109c/-	(cc=0.4648)	info on Rv1109c/-
Rv3568c/hsaC	(cc=0.4599)	info on Rv3568c/hsaC
Rv2605c/tesB2	(cc=0.4454)	info on Rv2605c/tesB2
Rv3400/-	(cc=0.4445)	info on Rv3400/-
Rv0916c/PE7	(cc=0.428)	info on Rv0916c/PE7
Rv2683/-	(cc=0.4272)	info on Rv2683/-
Rv3552/-	(cc=0.4254)	info on Rv3552/-
Rv0100/-	(cc=0.4229)	info on Rv0100/-

Correlation of Rv2855/mtr with Rv1025/-

Normalized LFCs for Rv2855/mtr:
(description and provenance of datasets)

	Rv2855/mtr	Rv1025/-
Fe_supp_jason_reseq	-0.163	0.0
low_pH_jason_reseq	1.715	0.0
NO_jason_reseq	-0.415	0.0
B6_jason_reseq	-0.114	0.0
MHCII_jason_reseq	-0.839	0.0
Isoniazid02	1.285	1.336
Rifampicin4	-0.252	-0.983
Ethambutol3	-0.173	0.095
Meropenem3	0.204	0.093
Vancomycin16	0.231	0.0
Rv2680_day32	0.131	-0.151
H37Rv_KO_MarP	0.502	0.178
hypoxia_3wks	0.263	0.0
hypoxia_6wks	0.0	0.0
glycerol	-0.061	0.0
cholesterol	-0.392	0.0
AJ	-1.612	0.0
Bibs02	-1.893	0.0
Bibs02c	-0.567	0.0
BL6	0.037	0.0
BL6a	0.0	0.0
BXD01	0.778	0.0
BXD010	-0.039	0.0
BXD011	1.595	0.0
BXD03	0.153	0.0
BXD04	0.14	0.0
BXD05	-0.126	0.0
BXD06	0.498	0.0
BXD07	0.395	0.0
BXD08	0.0	0.0
BXD09	0.464	0.0
CAST	-0.215	0.0
CCcont	0.525	0.0
DS01	-0.299	0.0
DS02	-0.676	0.0
DS04	-0.603	0.0
DS0c	-1.053	0.0
GP01	-0.433	0.0
GP02	-0.68	0.0
GP0c	-0.981	0.0
NOD	-0.609	0.0
NZO	-0.186	0.0
PWK	0.274	0.0
H37Rv_KO_CtpC	0.672	0.0
H37Rv_KO_CtpD	-0.499	0.0
H37Rv_KO_Rv1272	-0.132	0.0
H37Rv_KO_SugABC	-0.231	0.0
H37Rv_KO_MbtN	-0.716	0.0
Trans05	0.666	0.0
macrophage_unactivated	-0.133	0.0
IL1	-0.125	0.0
Rapamycin	-0.261	0.0
Tcell	0.629	0.0
GMCSF	0.51	0.0
IFNab	0.0	0.0
IFNg	0.214	0.0
IFNg_GMCSF1	-0.852	0.0
Rv1432_day32	-0.859	0.0
Rv1565c_day32	-0.057	0.0
secA2_input	1.005	0.399
delta_Rv3594	-0.471	0.0
delta_Rv3717	0.378	0.0
delta_Rv3811	-0.085	0.0
delta_Rv0954	0.388	0.0
PonA1	0.293	0.979
EccD1_KO	0.898	0.414
EspI_KO	1.78	1.791
PE35_KO	0.335	0.0
PPE68_KO	0.71	0.403
glycerol2	-0.062	0.0
lignocerate	0.027	0.0
oleate	0.394	0.0
phosphatidylcholine	0.176	0.0
acetate	-0.437	0.0
glucAc	-0.385	0.0
Rv0950ko	0.262	0.0
Rv1096ko	1.384	1.463
Rv3684ko	0.144	0.0
delta_otsA_trehalose	1.645	0.599