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 Rv0826/-

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

	Rv0402c/mmpL1	Rv0826/-
Fe_supp_jason_reseq	-0.098	-0.48
low_pH_jason_reseq	-0.151	-1.4
NO_jason_reseq	-0.284	0.845
B6_jason_reseq	0.084	0.127
MHCII_jason_reseq	0.146	0.272
Isoniazid02	-0.105	0.013
Rifampicin4	-0.138	-0.168
Ethambutol3	0.152	-0.011
Meropenem3	0.327	0.061
Vancomycin16	0.18	-0.154
Rv2680_day32	0.708	1.381
H37Rv_KO_MarP	0.473	0.161
hypoxia_3wks	0.064	0.0
hypoxia_6wks	-0.203	0.038
glycerol	-0.867	-0.696
cholesterol	0.52	-0.232
AJ	0.39	0.35
Bibs02	0.619	0.339
Bibs02c	0.69	-0.118
BL6	0.112	0.35
BL6a	0.686	-0.267
BXD01	0.337	0.556
BXD010	0.354	0.217
BXD011	0.717	-0.054
BXD03	0.325	-0.116
BXD04	0.219	0.293
BXD05	0.265	0.171
BXD06	0.321	0.29
BXD07	0.233	-0.027
BXD08	0.307	0.383
BXD09	0.229	-0.039
CAST	0.42	0.075
CCcont	0.017	-0.029
DS01	0.135	0.222
DS02	0.038	0.348
DS04	0.045	0.631
DS0c	-0.025	-0.104
GP01	0.205	0.061
GP02	-0.055	0.156
GP0c	-0.137	-0.147
NOD	0.529	-0.037
NZO	0.374	0.538
PWK	0.32	0.585
H37Rv_KO_CtpC	-0.235	0.112
H37Rv_KO_CtpD	0.213	-0.155
H37Rv_KO_Rv1272	0.142	0.09
H37Rv_KO_SugABC	0.314	0.121
H37Rv_KO_MbtN	-0.025	0.803
Trans05	-0.024	0.704
macrophage_unactivated	-0.177	0.388
IL1	-0.024	-0.071
Rapamycin	-0.298	-0.316
Tcell	0.075	0.3
GMCSF	0.121	0.335
IFNab	-0.345	-0.532
IFNg	0.243	0.126
IFNg_GMCSF1	0.239	0.902
Rv1432_day32	1.897	1.446
Rv1565c_day32	0.316	0.074
secA2_input	-0.318	0.404
delta_Rv3594	0.049	0.119
delta_Rv3717	-0.028	0.554
delta_Rv3811	0.288	0.306
delta_Rv0954	0.123	0.328
PonA1	0.351	-0.304
EccD1_KO	0.174	-0.257
EspI_KO	-0.106	0.536
PE35_KO	0.28	-0.615
PPE68_KO	0.198	-0.656
glycerol2	0.308	-0.015
lignocerate	0.363	0.179
oleate	0.432	0.213
phosphatidylcholine	0.437	0.262
acetate	0.013	-0.025
glucAc	-0.081	-0.139
Rv0950ko	0.32	0.51
Rv1096ko	0.739	0.73
Rv3684ko	0.671	1.035
delta_otsA_trehalose	-0.726	-0.544