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 Rv2998/-

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

	Rv3074/-	Rv2998/-
Fe_supp_jason_reseq	-0.12	0.0
low_pH_jason_reseq	0.293	-1.074
NO_jason_reseq	-0.252	0.378
B6_jason_reseq	-0.118	-0.74
MHCII_jason_reseq	-0.113	0.621
Isoniazid02	0.332	-0.723
Rifampicin4	1.438	0.647
Ethambutol3	0.348	-0.373
Meropenem3	0.313	-1.329
Vancomycin16	0.844	-0.568
Rv2680_day32	0.361	-2.766
H37Rv_KO_MarP	0.144	0.401
hypoxia_3wks	0.494	0.044
hypoxia_6wks	0.871	0.67
glycerol	-0.704	-0.357
cholesterol	0.01	-0.07
AJ	0.276	-0.015
Bibs02	-0.657	-0.558
Bibs02c	-0.483	0.571
BL6	-0.361	0.368
BL6a	-0.121	0.927
BXD01	0.543	0.66
BXD010	-0.25	-0.018
BXD011	-0.098	0.008
BXD03	-0.5	0.289
BXD04	-0.833	0.389
BXD05	0.195	1.214
BXD06	-0.168	0.642
BXD07	-0.162	0.769
BXD08	0.219	0.684
BXD09	-0.447	0.576
CAST	-0.234	0.137
CCcont	0.117	-0.389
DS01	-1.109	-0.536
DS02	0.047	-0.438
DS04	-0.396	-0.208
DS0c	0.383	1.571
GP01	0.036	1.334
GP02	-0.884	-0.538
GP0c	-0.413	-0.23
NOD	-0.583	-0.174
NZO	-0.302	-0.663
PWK	0.168	0.993
H37Rv_KO_CtpC	0.149	0.613
H37Rv_KO_CtpD	-0.128	1.171
H37Rv_KO_Rv1272	-0.226	0.714
H37Rv_KO_SugABC	-1.711	-1.841
H37Rv_KO_MbtN	0.074	-1.256
Trans05	0.668	0.127
macrophage_unactivated	0.814	0.877
IL1	-0.033	0.068
Rapamycin	0.62	0.071
Tcell	0.658	0.345
GMCSF	-0.298	1.085
IFNab	-0.033	0.121
IFNg	0.385	0.535
IFNg_GMCSF1	1.348	0.214
Rv1432_day32	0.166	1.7
Rv1565c_day32	-0.978	-0.381
secA2_input	0.711	-0.304
delta_Rv3594	-0.828	-2.168
delta_Rv3717	-0.106	-1.986
delta_Rv3811	-1.463	-1.698
delta_Rv0954	-0.388	-1.265
PonA1	-0.139	-2.401
EccD1_KO	1.677	1.214
EspI_KO	1.095	0.633
PE35_KO	1.175	1.896
PPE68_KO	1.433	1.609
glycerol2	0.398	0.371
lignocerate	0.558	-0.186
oleate	0.121	0.74
phosphatidylcholine	0.604	0.577
acetate	0.02	-0.977
glucAc	0.304	-1.121
Rv0950ko	-0.103	0.757
Rv1096ko	0.229	1.707
Rv3684ko	0.0	-0.242
delta_otsA_trehalose	-1.154	-2.389