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 Rv1522c/mmpL12

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

	Rv1431/-	Rv1522c/mmpL12
Fe_supp_jason_reseq	1.705	0.155
low_pH_jason_reseq	-0.413	-0.094
NO_jason_reseq	0.646	0.142
B6_jason_reseq	1.166	-0.722
MHCII_jason_reseq	0.675	-0.391
Isoniazid02	0.195	-0.998
Rifampicin4	0.257	-0.617
Ethambutol3	0.311	-0.761
Meropenem3	-0.086	-0.375
Vancomycin16	0.584	-0.621
Rv2680_day32	-0.045	0.562
H37Rv_KO_MarP	-0.394	0.102
hypoxia_3wks	0.526	0.112
hypoxia_6wks	0.844	0.115
glycerol	-0.015	-0.527
cholesterol	-1.049	-0.503
AJ	-0.052	-0.245
Bibs02	0.264	0.152
Bibs02c	1.147	0.045
BL6	-0.009	0.062
BL6a	0.829	0.402
BXD01	0.323	0.241
BXD010	0.368	0.157
BXD011	0.366	0.139
BXD03	-0.168	0.029
BXD04	0.17	0.103
BXD05	-0.225	0.409
BXD06	-0.212	0.434
BXD07	0.444	0.495
BXD08	0.029	0.137
BXD09	-0.118	0.078
CAST	0.132	0.0
CCcont	0.176	0.221
DS01	0.086	0.051
DS02	-0.254	-0.08
DS04	-0.593	0.162
DS0c	0.031	-0.162
GP01	-0.2	0.594
GP02	-1.039	0.705
GP0c	-0.797	-0.138
NOD	0.081	0.648
NZO	-0.201	-0.133
PWK	0.257	-0.178
H37Rv_KO_CtpC	0.127	0.405
H37Rv_KO_CtpD	0.174	0.945
H37Rv_KO_Rv1272	0.583	1.056
H37Rv_KO_SugABC	0.036	0.413
H37Rv_KO_MbtN	0.446	0.515
Trans05	-0.521	0.717
macrophage_unactivated	0.095	0.051
IL1	-0.377	-0.098
Rapamycin	-0.856	0.049
Tcell	-0.238	-0.218
GMCSF	-0.164	0.209
IFNab	-0.284	-0.305
IFNg	-0.251	-0.021
IFNg_GMCSF1	-0.471	-0.182
Rv1432_day32	5.473	3.323
Rv1565c_day32	0.087	0.439
secA2_input	0.219	0.204
delta_Rv3594	0.676	0.171
delta_Rv3717	0.653	-0.024
delta_Rv3811	0.88	0.406
delta_Rv0954	0.308	-0.116
PonA1	0.12	-0.128
EccD1_KO	0.654	0.589
EspI_KO	0.867	-0.165
PE35_KO	1.21	0.4
PPE68_KO	1.414	0.438
glycerol2	-0.279	-0.13
lignocerate	-0.077	0.054
oleate	0.037	-0.286
phosphatidylcholine	0.403	0.049
acetate	-0.105	-0.123
glucAc	1.56	0.232
Rv0950ko	0.241	0.0
Rv1096ko	-0.169	-0.893
Rv3684ko	0.134	-0.54
delta_otsA_trehalose	-0.105	-0.397