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 Rv3074/-:

update plot	correlation	link to info on gene
Rv1939/-	(cc=0.4927)	info on Rv1939/-
Rv3195/-	(cc=0.4689)	info on Rv3195/-
Rv2980/-	(cc=0.4557)	info on Rv2980/-
Rv0869c/moaA2	(cc=0.4552)	info on Rv0869c/moaA2
Rv3055/-	(cc=0.4466)	info on Rv3055/-
Rv2504c/scoA	(cc=0.4309)	info on Rv2504c/scoA
Rv3057c/-	(cc=0.43)	info on Rv3057c/-
Rv2998/-	(cc=0.4283)	info on Rv2998/-
Rv2251/-	(cc=0.4239)	info on Rv2251/-
Rv0690c/-	(cc=0.4227)	info on Rv0690c/-

Correlation of Rv3074/- with Rv2980/-

Normalized LFCs for Rv3074/-:
(description and provenance of datasets)

	Rv3074/-	Rv2980/-
Fe_supp_jason_reseq	-0.12	0.0
low_pH_jason_reseq	0.293	0.0
NO_jason_reseq	-0.252	0.0
B6_jason_reseq	-0.118	0.0
MHCII_jason_reseq	-0.113	0.0
Isoniazid02	0.332	0.0
Rifampicin4	1.438	0.0
Ethambutol3	0.348	0.32
Meropenem3	0.313	0.165
Vancomycin16	0.844	0.0
Rv2680_day32	0.361	0.0
H37Rv_KO_MarP	0.144	-0.371
hypoxia_3wks	0.494	0.0
hypoxia_6wks	0.871	0.0
glycerol	-0.704	0.0
cholesterol	0.01	0.0
AJ	0.276	0.0
Bibs02	-0.657	0.0
Bibs02c	-0.483	0.0
BL6	-0.361	0.0
BL6a	-0.121	0.0
BXD01	0.543	0.0
BXD010	-0.25	0.0
BXD011	-0.098	0.0
BXD03	-0.5	0.0
BXD04	-0.833	0.0
BXD05	0.195	0.0
BXD06	-0.168	0.0
BXD07	-0.162	0.0
BXD08	0.219	0.0
BXD09	-0.447	0.0
CAST	-0.234	0.0
CCcont	0.117	0.0
DS01	-1.109	0.236
DS02	0.047	0.0
DS04	-0.396	0.194
DS0c	0.383	0.0
GP01	0.036	0.0
GP02	-0.884	0.0
GP0c	-0.413	0.0
NOD	-0.583	0.0
NZO	-0.302	0.0
PWK	0.168	0.0
H37Rv_KO_CtpC	0.149	0.0
H37Rv_KO_CtpD	-0.128	0.0
H37Rv_KO_Rv1272	-0.226	0.0
H37Rv_KO_SugABC	-1.711	0.0
H37Rv_KO_MbtN	0.074	0.0
Trans05	0.668	0.0
macrophage_unactivated	0.814	0.0
IL1	-0.033	0.0
Rapamycin	0.62	0.0
Tcell	0.658	0.0
GMCSF	-0.298	0.0
IFNab	-0.033	0.0
IFNg	0.385	0.0
IFNg_GMCSF1	1.348	0.0
Rv1432_day32	0.166	0.0
Rv1565c_day32	-0.978	0.0
secA2_input	0.711	2.043
delta_Rv3594	-0.828	0.0
delta_Rv3717	-0.106	0.0
delta_Rv3811	-1.463	-0.205
delta_Rv0954	-0.388	0.0
PonA1	-0.139	0.402
EccD1_KO	1.677	2.23
EspI_KO	1.095	1.081
PE35_KO	1.175	1.978
PPE68_KO	1.433	2.963
glycerol2	0.398	0.0
lignocerate	0.558	0.0
oleate	0.121	0.0
phosphatidylcholine	0.604	0.0
acetate	0.02	0.0
glucAc	0.304	0.0
Rv0950ko	-0.103	1.049
Rv1096ko	0.229	1.05
Rv3684ko	0.0	0.413
delta_otsA_trehalose	-1.154	0.0