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 Rv1431/-:

update plot	correlation	link to info on gene
Rv1522c/mmpL12	(cc=0.5518)	info on Rv1522c/mmpL12
Rv1671/-	(cc=0.5125)	info on Rv1671/-
Rv3186/-	(cc=0.488)	info on Rv3186/-
Rv1132/-	(cc=0.4547)	info on Rv1132/-
Rv0402c/mmpL1	(cc=0.4235)	info on Rv0402c/mmpL1
Rv3478/PPE60	(cc=0.4126)	info on Rv3478/PPE60
Rv0546c/-	(cc=0.409)	info on Rv0546c/-
Rv3479/-	(cc=0.4053)	info on Rv3479/-
Rv0743c/-	(cc=0.4037)	info on Rv0743c/-
Rv1965/yrbE3B	(cc=0.3997)	info on Rv1965/yrbE3B

Correlation of Rv1431/- with Rv3479/-

Normalized LFCs for Rv1431/-:
(description and provenance of datasets)

	Rv1431/-	Rv3479/-
Fe_supp_jason_reseq	1.705	-0.426
low_pH_jason_reseq	-0.413	-0.544
NO_jason_reseq	0.646	0.173
B6_jason_reseq	1.166	0.097
MHCII_jason_reseq	0.675	0.155
Isoniazid02	0.195	0.955
Rifampicin4	0.257	-0.428
Ethambutol3	0.311	1.175
Meropenem3	-0.086	1.544
Vancomycin16	0.584	-0.419
Rv2680_day32	-0.045	1.463
H37Rv_KO_MarP	-0.394	0.374
hypoxia_3wks	0.526	-1.372
hypoxia_6wks	0.844	-0.591
glycerol	-0.015	0.212
cholesterol	-1.049	-0.55
AJ	-0.052	0.398
Bibs02	0.264	-0.658
Bibs02c	1.147	-0.596
BL6	-0.009	0.051
BL6a	0.829	-0.294
BXD01	0.323	-0.009
BXD010	0.368	-0.15
BXD011	0.366	-0.082
BXD03	-0.168	-0.168
BXD04	0.17	0.357
BXD05	-0.225	0.175
BXD06	-0.212	-0.126
BXD07	0.444	-0.119
BXD08	0.029	-0.241
BXD09	-0.118	0.0
CAST	0.132	0.475
CCcont	0.176	-0.118
DS01	0.086	-0.37
DS02	-0.254	-0.046
DS04	-0.593	-0.197
DS0c	0.031	-0.091
GP01	-0.2	-0.071
GP02	-1.039	0.045
GP0c	-0.797	-0.765
NOD	0.081	0.016
NZO	-0.201	0.478
PWK	0.257	0.371
H37Rv_KO_CtpC	0.127	-0.294
H37Rv_KO_CtpD	0.174	0.109
H37Rv_KO_Rv1272	0.583	-0.73
H37Rv_KO_SugABC	0.036	0.17
H37Rv_KO_MbtN	0.446	0.594
Trans05	-0.521	-0.055
macrophage_unactivated	0.095	-0.278
IL1	-0.377	0.062
Rapamycin	-0.856	-0.132
Tcell	-0.238	-0.593
GMCSF	-0.164	0.219
IFNab	-0.284	-0.372
IFNg	-0.251	0.056
IFNg_GMCSF1	-0.471	-0.277
Rv1432_day32	5.473	2.477
Rv1565c_day32	0.087	0.603
secA2_input	0.219	0.33
delta_Rv3594	0.676	-0.106
delta_Rv3717	0.653	-0.064
delta_Rv3811	0.88	0.073
delta_Rv0954	0.308	0.318
PonA1	0.12	0.701
EccD1_KO	0.654	0.918
EspI_KO	0.867	0.91
PE35_KO	1.21	1.114
PPE68_KO	1.414	0.675
glycerol2	-0.279	0.202
lignocerate	-0.077	0.25
oleate	0.037	-0.457
phosphatidylcholine	0.403	-0.14
acetate	-0.105	-0.19
glucAc	1.56	0.096
Rv0950ko	0.241	-0.621
Rv1096ko	-0.169	0.434
Rv3684ko	0.134	-0.524
delta_otsA_trehalose	-0.105	-0.083