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 Rv2463/lipP:

update plot	correlation	link to info on gene
Rv0191/-	(cc=0.5007)	info on Rv0191/-
Rv1562c/treZ	(cc=0.451)	info on Rv1562c/treZ
Rv2240c/-	(cc=0.4213)	info on Rv2240c/-
Rv1686c/-	(cc=0.4168)	info on Rv1686c/-
Rv0787/-	(cc=0.4164)	info on Rv0787/-
Rv3064c/-	(cc=0.4163)	info on Rv3064c/-
Rv2314c/-	(cc=0.4076)	info on Rv2314c/-
Rv0323c/-	(cc=0.383)	info on Rv0323c/-
Rv3106/fprA	(cc=0.371)	info on Rv3106/fprA
Rv0572c/-	(cc=0.3646)	info on Rv0572c/-

Correlation of Rv2463/lipP with Rv0323c/-

Normalized LFCs for Rv2463/lipP:
(description and provenance of datasets)

	Rv2463/lipP	Rv0323c/-
Fe_supp_jason_reseq	-0.526	-1.607
low_pH_jason_reseq	-0.42	-0.487
NO_jason_reseq	-0.874	-0.441
B6_jason_reseq	-0.567	-1.211
MHCII_jason_reseq	0.391	-0.628
Isoniazid02	-0.281	0.694
Rifampicin4	-0.39	-1.026
Ethambutol3	0.883	0.866
Meropenem3	-1.3	-0.734
Vancomycin16	1.801	-0.212
Rv2680_day32	0.115	1.477
H37Rv_KO_MarP	0.133	0.268
hypoxia_3wks	-0.77	-0.399
hypoxia_6wks	-0.436	0.326
glycerol	0.606	0.111
cholesterol	0.038	0.095
AJ	-0.126	-0.768
Bibs02	0.184	0.997
Bibs02c	0.218	-0.629
BL6	0.548	1.152
BL6a	0.06	0.274
BXD01	-1.038	0.18
BXD010	0.011	0.732
BXD011	-0.496	0.77
BXD03	-0.183	0.613
BXD04	-0.686	0.108
BXD05	-0.288	0.074
BXD06	-0.129	0.311
BXD07	-0.062	0.523
BXD08	-0.411	0.481
BXD09	-0.386	1.14
CAST	-0.767	-0.367
CCcont	0.372	0.873
DS01	-0.161	0.104
DS02	-0.232	0.66
DS04	-0.052	-0.833
DS0c	-0.088	-0.346
GP01	0.063	1.82
GP02	0.674	-0.237
GP0c	0.061	0.971
NOD	-0.029	0.148
NZO	-0.789	0.11
PWK	-0.631	-0.946
H37Rv_KO_CtpC	-0.95	-0.393
H37Rv_KO_CtpD	-0.693	-1.894
H37Rv_KO_Rv1272	0.096	-0.134
H37Rv_KO_SugABC	0.941	0.249
H37Rv_KO_MbtN	0.104	-1.591
Trans05	0.151	-0.917
macrophage_unactivated	-0.533	0.18
IL1	-0.095	0.605
Rapamycin	0.433	0.838
Tcell	-0.551	0.362
GMCSF	0.013	-0.187
IFNab	0.218	0.399
IFNg	-0.072	1.406
IFNg_GMCSF1	-0.016	-0.072
Rv1432_day32	-0.734	0.269
Rv1565c_day32	1.208	0.479
secA2_input	-0.288	-1.043
delta_Rv3594	0.017	-0.483
delta_Rv3717	-0.555	-0.527
delta_Rv3811	-0.427	-0.578
delta_Rv0954	-0.313	0.155
PonA1	0.097	0.197
EccD1_KO	-0.089	0.118
EspI_KO	-0.322	0.297
PE35_KO	0.058	-0.642
PPE68_KO	-0.432	-0.403
glycerol2	0.154	1.058
lignocerate	0.58	1.085
oleate	-0.822	0.352
phosphatidylcholine	0.091	0.748
acetate	0.326	0.238
glucAc	0.548	0.358
Rv0950ko	-0.021	0.582
Rv1096ko	-0.769	0.359
Rv3684ko	-0.662	0.046
delta_otsA_trehalose	1.533	3.156