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 Rv2961/-

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

	Rv0402c/mmpL1	Rv2961/-
Fe_supp_jason_reseq	-0.098	-0.088
low_pH_jason_reseq	-0.151	-0.204
NO_jason_reseq	-0.284	0.037
B6_jason_reseq	0.084	0.626
MHCII_jason_reseq	0.146	0.153
Isoniazid02	-0.105	-0.454
Rifampicin4	-0.138	-0.019
Ethambutol3	0.152	-0.338
Meropenem3	0.327	-0.333
Vancomycin16	0.18	0.297
Rv2680_day32	0.708	0.793
H37Rv_KO_MarP	0.473	0.618
hypoxia_3wks	0.064	-0.175
hypoxia_6wks	-0.203	-0.127
glycerol	-0.867	-0.61
cholesterol	0.52	-0.165
AJ	0.39	1.486
Bibs02	0.619	0.706
Bibs02c	0.69	0.49
BL6	0.112	-0.535
BL6a	0.686	0.016
BXD01	0.337	-0.159
BXD010	0.354	0.373
BXD011	0.717	0.081
BXD03	0.325	-0.964
BXD04	0.219	-0.473
BXD05	0.265	-0.261
BXD06	0.321	-0.541
BXD07	0.233	-0.269
BXD08	0.307	0.68
BXD09	0.229	-0.576
CAST	0.42	0.801
CCcont	0.017	-0.354
DS01	0.135	-0.065
DS02	0.038	0.688
DS04	0.045	0.79
DS0c	-0.025	0.848
GP01	0.205	-0.313
GP02	-0.055	0.174
GP0c	-0.137	-0.733
NOD	0.529	-0.345
NZO	0.374	-0.111
PWK	0.32	-0.182
H37Rv_KO_CtpC	-0.235	-0.612
H37Rv_KO_CtpD	0.213	-0.096
H37Rv_KO_Rv1272	0.142	-0.571
H37Rv_KO_SugABC	0.314	-0.412
H37Rv_KO_MbtN	-0.025	-0.205
Trans05	-0.024	-1.035
macrophage_unactivated	-0.177	0.597
IL1	-0.024	0.306
Rapamycin	-0.298	-0.196
Tcell	0.075	-0.147
GMCSF	0.121	1.494
IFNab	-0.345	0.75
IFNg	0.243	0.518
IFNg_GMCSF1	0.239	0.61
Rv1432_day32	1.897	2.322
Rv1565c_day32	0.316	0.668
secA2_input	-0.318	-0.687
delta_Rv3594	0.049	-0.479
delta_Rv3717	-0.028	-0.953
delta_Rv3811	0.288	-1.02
delta_Rv0954	0.123	-0.353
PonA1	0.351	0.222
EccD1_KO	0.174	1.006
EspI_KO	-0.106	0.856
PE35_KO	0.28	0.706
PPE68_KO	0.198	0.403
glycerol2	0.308	0.894
lignocerate	0.363	0.387
oleate	0.432	1.106
phosphatidylcholine	0.437	0.606
acetate	0.013	-0.238
glucAc	-0.081	-0.352
Rv0950ko	0.32	-0.166
Rv1096ko	0.739	-0.151
Rv3684ko	0.671	-0.963
delta_otsA_trehalose	-0.726	-1.814