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 Rv1491c/-:

update plot	correlation	link to info on gene
Rv3050c/-	(cc=0.6229)	info on Rv3050c/-
Rv3818/-	(cc=0.6165)	info on Rv3818/-
Rv3794/embA	(cc=0.6065)	info on Rv3794/embA
Rv2584c/apt	(cc=0.5924)	info on Rv2584c/apt
Rv0642c/mmaA4	(cc=0.5795)	info on Rv0642c/mmaA4
Rv0050/ponA1	(cc=0.5774)	info on Rv0050/ponA1
Rv0502/-	(cc=0.5752)	info on Rv0502/-
Rv3218/-	(cc=0.5707)	info on Rv3218/-
Rv0645c/mmaA1	(cc=0.55)	info on Rv0645c/mmaA1
Rv0425c/ctpH	(cc=0.5445)	info on Rv0425c/ctpH

Correlation of Rv1491c/- with Rv0425c/ctpH

Normalized LFCs for Rv1491c/-:
(description and provenance of datasets)

	Rv1491c/-	Rv0425c/ctpH
Fe_supp_jason_reseq	-0.737	-1.718
low_pH_jason_reseq	0.482	1.173
NO_jason_reseq	0.58	0.118
B6_jason_reseq	0.139	-0.236
MHCII_jason_reseq	-0.984	-0.013
Isoniazid02	-0.569	-0.111
Rifampicin4	-0.972	0.701
Ethambutol3	-1.231	-0.581
Meropenem3	-0.927	-0.163
Vancomycin16	-1.685	-0.255
Rv2680_day32	-0.412	2.133
H37Rv_KO_MarP	-1.242	0.419
hypoxia_3wks	1.168	1.037
hypoxia_6wks	0.731	1.599
glycerol	0.028	0.743
cholesterol	0.235	0.278
AJ	0.064	0.151
Bibs02	-0.203	0.734
Bibs02c	-0.402	0.264
BL6	0.82	0.794
BL6a	0.161	1.347
BXD01	0.408	1.183
BXD010	0.751	1.184
BXD011	1.582	1.811
BXD03	0.219	0.677
BXD04	0.627	1.388
BXD05	0.4	1.185
BXD06	0.452	1.52
BXD07	0.696	0.914
BXD08	0.248	1.311
BXD09	0.719	1.391
CAST	-0.365	-0.357
CCcont	0.242	0.251
DS01	-0.534	0.491
DS02	-0.51	0.726
DS04	-0.389	0.675
DS0c	0.19	0.486
GP01	0.166	1.245
GP02	1.402	1.46
GP0c	0.4	0.667
NOD	0.031	-0.226
NZO	0.418	0.552
PWK	-0.901	-0.097
H37Rv_KO_CtpC	0.367	0.178
H37Rv_KO_CtpD	0.742	-1.43
H37Rv_KO_Rv1272	-0.06	1.055
H37Rv_KO_SugABC	0.218	0.736
H37Rv_KO_MbtN	1.359	1.73
Trans05	0.787	2.05
macrophage_unactivated	-0.376	-0.41
IL1	0.611	0.997
Rapamycin	0.516	0.755
Tcell	0.248	2.108
GMCSF	0.018	0.119
IFNab	0.49	-0.502
IFNg	0.056	0.254
IFNg_GMCSF1	0.324	0.041
Rv1432_day32	0.488	3.046
Rv1565c_day32	0.987	-0.291
secA2_input	-1.24	0.326
delta_Rv3594	-0.148	-0.081
delta_Rv3717	0.433	2.065
delta_Rv3811	0.009	0.813
delta_Rv0954	-0.619	-1.301
PonA1	-1.098	-0.862
EccD1_KO	-0.536	-1.812
EspI_KO	-0.99	-2.139
PE35_KO	-0.166	-1.779
PPE68_KO	-0.624	-1.718
glycerol2	-0.479	0.27
lignocerate	0.167	0.726
oleate	-1.259	-0.403
phosphatidylcholine	-0.268	0.249
acetate	-0.218	0.733
glucAc	0.183	0.628
Rv0950ko	-0.401	-0.826
Rv1096ko	-1.357	-0.591
Rv3684ko	-0.501	-0.085
delta_otsA_trehalose	-0.953	-0.203