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 Rv2187/fadD15

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

	Rv0402c/mmpL1	Rv2187/fadD15
Fe_supp_jason_reseq	-0.098	-0.534
low_pH_jason_reseq	-0.151	-0.303
NO_jason_reseq	-0.284	1.124
B6_jason_reseq	0.084	0.165
MHCII_jason_reseq	0.146	-0.597
Isoniazid02	-0.105	0.349
Rifampicin4	-0.138	0.16
Ethambutol3	0.152	-0.011
Meropenem3	0.327	-0.023
Vancomycin16	0.18	-0.406
Rv2680_day32	0.708	0.836
H37Rv_KO_MarP	0.473	0.526
hypoxia_3wks	0.064	0.132
hypoxia_6wks	-0.203	0.069
glycerol	-0.867	-0.566
cholesterol	0.52	-0.14
AJ	0.39	0.748
Bibs02	0.619	-0.132
Bibs02c	0.69	-0.162
BL6	0.112	-0.034
BL6a	0.686	0.261
BXD01	0.337	0.445
BXD010	0.354	0.405
BXD011	0.717	0.521
BXD03	0.325	0.103
BXD04	0.219	0.201
BXD05	0.265	0.775
BXD06	0.321	0.581
BXD07	0.233	0.301
BXD08	0.307	0.632
BXD09	0.229	0.407
CAST	0.42	1.44
CCcont	0.017	-0.279
DS01	0.135	-0.356
DS02	0.038	-0.169
DS04	0.045	0.669
DS0c	-0.025	0.093
GP01	0.205	0.286
GP02	-0.055	0.328
GP0c	-0.137	0.151
NOD	0.529	0.527
NZO	0.374	0.517
PWK	0.32	0.877
H37Rv_KO_CtpC	-0.235	-0.173
H37Rv_KO_CtpD	0.213	-0.006
H37Rv_KO_Rv1272	0.142	-0.324
H37Rv_KO_SugABC	0.314	0.547
H37Rv_KO_MbtN	-0.025	-0.046
Trans05	-0.024	1.157
macrophage_unactivated	-0.177	0.161
IL1	-0.024	0.19
Rapamycin	-0.298	0.27
Tcell	0.075	0.384
GMCSF	0.121	0.185
IFNab	-0.345	-0.478
IFNg	0.243	0.444
IFNg_GMCSF1	0.239	0.179
Rv1432_day32	1.897	1.572
Rv1565c_day32	0.316	-0.625
secA2_input	-0.318	-0.376
delta_Rv3594	0.049	0.355
delta_Rv3717	-0.028	0.456
delta_Rv3811	0.288	0.274
delta_Rv0954	0.123	-0.477
PonA1	0.351	-0.417
EccD1_KO	0.174	0.691
EspI_KO	-0.106	-0.068
PE35_KO	0.28	0.633
PPE68_KO	0.198	0.25
glycerol2	0.308	0.595
lignocerate	0.363	0.598
oleate	0.432	0.872
phosphatidylcholine	0.437	0.626
acetate	0.013	-0.033
glucAc	-0.081	0.868
Rv0950ko	0.32	-0.308
Rv1096ko	0.739	0.048
Rv3684ko	0.671	0.262
delta_otsA_trehalose	-0.726	-0.626