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 Rv2424c/-:

update plot	correlation	link to info on gene
Rv1367c/-	(cc=0.5961)	info on Rv1367c/-
Rv3055/-	(cc=0.5948)	info on Rv3055/-
Rv2786c/ribF	(cc=0.5633)	info on Rv2786c/ribF
Rv2177c/-	(cc=0.5495)	info on Rv2177c/-
Rv1250/-	(cc=0.5155)	info on Rv1250/-
Rv2980/-	(cc=0.5125)	info on Rv2980/-
Rv0520/-	(cc=0.5123)	info on Rv0520/-
Rv2915c/-	(cc=0.5113)	info on Rv2915c/-
Rv0895/-	(cc=0.5109)	info on Rv0895/-
Rv1735c/-	(cc=0.5061)	info on Rv1735c/-

Correlation of Rv2424c/- with Rv2980/-

Normalized LFCs for Rv2424c/-:
(description and provenance of datasets)

	Rv2424c/-	Rv2980/-
Fe_supp_jason_reseq	-0.701	0.0
low_pH_jason_reseq	-1.082	0.0
NO_jason_reseq	0.349	0.0
B6_jason_reseq	0.996	0.0
MHCII_jason_reseq	-0.668	0.0
Isoniazid02	-0.18	0.0
Rifampicin4	0.875	0.0
Ethambutol3	0.573	0.32
Meropenem3	0.659	0.165
Vancomycin16	0.645	0.0
Rv2680_day32	0.043	0.0
H37Rv_KO_MarP	0.676	-0.371
hypoxia_3wks	-0.167	0.0
hypoxia_6wks	0.121	0.0
glycerol	-1.287	0.0
cholesterol	-0.457	0.0
AJ	0.913	0.0
Bibs02	-0.148	0.0
Bibs02c	0.196	0.0
BL6	0.455	0.0
BL6a	-0.29	0.0
BXD01	-0.276	0.0
BXD010	-0.559	0.0
BXD011	-0.513	0.0
BXD03	-0.213	0.0
BXD04	0.063	0.0
BXD05	-0.628	0.0
BXD06	-0.469	0.0
BXD07	-0.288	0.0
BXD08	-0.209	0.0
BXD09	-0.242	0.0
CAST	0.295	0.0
CCcont	-1.203	0.0
DS01	0.33	0.236
DS02	0.775	0.0
DS04	0.864	0.194
DS0c	0.412	0.0
GP01	0.121	0.0
GP02	0.333	0.0
GP0c	0.623	0.0
NOD	0.413	0.0
NZO	0.909	0.0
PWK	0.645	0.0
H37Rv_KO_CtpC	-0.184	0.0
H37Rv_KO_CtpD	-0.777	0.0
H37Rv_KO_Rv1272	-0.222	0.0
H37Rv_KO_SugABC	-0.344	0.0
H37Rv_KO_MbtN	-1.569	0.0
Trans05	1.084	0.0
macrophage_unactivated	-0.407	0.0
IL1	-1.1	0.0
Rapamycin	-0.93	0.0
Tcell	-0.479	0.0
GMCSF	0.098	0.0
IFNab	-0.937	0.0
IFNg	-0.69	0.0
IFNg_GMCSF1	0.148	0.0
Rv1432_day32	-0.03	0.0
Rv1565c_day32	0.215	0.0
secA2_input	0.941	2.043
delta_Rv3594	-0.72	0.0
delta_Rv3717	-0.865	0.0
delta_Rv3811	-0.769	-0.205
delta_Rv0954	-1.039	0.0
PonA1	-0.256	0.402
EccD1_KO	2.559	2.23
EspI_KO	1.657	1.081
PE35_KO	1.173	1.978
PPE68_KO	1.654	2.963
glycerol2	0.184	0.0
lignocerate	0.183	0.0
oleate	0.604	0.0
phosphatidylcholine	0.794	0.0
acetate	0.357	0.0
glucAc	-0.149	0.0
Rv0950ko	-0.069	1.049
Rv1096ko	-0.187	1.05
Rv3684ko	-0.334	0.413
delta_otsA_trehalose	-0.098	0.0