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 Rv0402c/mmpL1:

update plot	correlation	link to info on gene
Rv1587c/-	(cc=0.4907)	info on Rv1587c/-
Rv2585c/-	(cc=0.4785)	info on Rv2585c/-
Rv1450c/PE_PGRS27	(cc=0.4518)	info on Rv1450c/PE_PGRS27
Rv1522c/mmpL12	(cc=0.4399)	info on Rv1522c/mmpL12
Rv2187/fadD15	(cc=0.4371)	info on Rv2187/fadD15
Rv0826/-	(cc=0.4363)	info on Rv0826/-
Rv0825c/-	(cc=0.4363)	info on Rv0825c/-
Rv2961/-	(cc=0.4333)	info on Rv2961/-
Rv2312/-	(cc=0.4311)	info on Rv2312/-
Rv1431/-	(cc=0.4235)	info on Rv1431/-

Correlation of Rv0402c/mmpL1 with Rv1587c/-

Normalized LFCs for Rv0402c/mmpL1:
(description and provenance of datasets)

	Rv0402c/mmpL1	Rv1587c/-
Fe_supp_jason_reseq	-0.098	-0.292
low_pH_jason_reseq	-0.151	-0.253
NO_jason_reseq	-0.284	0.26
B6_jason_reseq	0.084	0.172
MHCII_jason_reseq	0.146	0.352
Isoniazid02	-0.105	0.201
Rifampicin4	-0.138	0.0
Ethambutol3	0.152	0.485
Meropenem3	0.327	1.945
Vancomycin16	0.18	-0.069
Rv2680_day32	0.708	-0.18
H37Rv_KO_MarP	0.473	-0.135
hypoxia_3wks	0.064	0.044
hypoxia_6wks	-0.203	-0.583
glycerol	-0.867	-1.005
cholesterol	0.52	-0.17
AJ	0.39	0.607
Bibs02	0.619	0.264
Bibs02c	0.69	-0.106
BL6	0.112	0.71
BL6a	0.686	0.198
BXD01	0.337	-0.162
BXD010	0.354	0.572
BXD011	0.717	0.759
BXD03	0.325	-0.009
BXD04	0.219	0.415
BXD05	0.265	0.286
BXD06	0.321	0.133
BXD07	0.233	0.138
BXD08	0.307	0.36
BXD09	0.229	-0.017
CAST	0.42	0.332
CCcont	0.017	-0.521
DS01	0.135	0.25
DS02	0.038	0.651
DS04	0.045	0.616
DS0c	-0.025	0.786
GP01	0.205	0.51
GP02	-0.055	0.794
GP0c	-0.137	0.229
NOD	0.529	-0.143
NZO	0.374	0.808
PWK	0.32	0.71
H37Rv_KO_CtpC	-0.235	-0.459
H37Rv_KO_CtpD	0.213	0.287
H37Rv_KO_Rv1272	0.142	-0.803
H37Rv_KO_SugABC	0.314	-1.055
H37Rv_KO_MbtN	-0.025	-0.444
Trans05	-0.024	-0.075
macrophage_unactivated	-0.177	-0.533
IL1	-0.024	-0.347
Rapamycin	-0.298	-0.485
Tcell	0.075	-0.906
GMCSF	0.121	-0.446
IFNab	-0.345	-1.125
IFNg	0.243	0.195
IFNg_GMCSF1	0.239	-0.305
Rv1432_day32	1.897	2.374
Rv1565c_day32	0.316	0.022
secA2_input	-0.318	-0.596
delta_Rv3594	0.049	0.658
delta_Rv3717	-0.028	-0.115
delta_Rv3811	0.288	0.573
delta_Rv0954	0.123	0.937
PonA1	0.351	0.099
EccD1_KO	0.174	0.141
EspI_KO	-0.106	-0.573
PE35_KO	0.28	-0.265
PPE68_KO	0.198	-0.07
glycerol2	0.308	-0.687
lignocerate	0.363	-0.505
oleate	0.432	-0.43
phosphatidylcholine	0.437	-0.562
acetate	0.013	-0.073
glucAc	-0.081	-0.167
Rv0950ko	0.32	0.615
Rv1096ko	0.739	0.615
Rv3684ko	0.671	0.704
delta_otsA_trehalose	-0.726	-0.018