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 Rv0446c/-:

update plot	correlation	link to info on gene
Rv3636/-	(cc=0.474)	info on Rv3636/-
Rv2857c/-	(cc=0.4455)	info on Rv2857c/-
Rv1417/-	(cc=0.4388)	info on Rv1417/-
Rv2218/lipA	(cc=0.4315)	info on Rv2218/lipA
Rv2234/ptpA	(cc=0.4282)	info on Rv2234/ptpA
Rv1496/-	(cc=0.4016)	info on Rv1496/-
Rv1269c/-	(cc=0.3973)	info on Rv1269c/-
Rv2877c/-	(cc=0.3924)	info on Rv2877c/-
Rv3379c/dxs2	(cc=0.3904)	info on Rv3379c/dxs2
Rv0575c/-	(cc=0.387)	info on Rv0575c/-

Correlation of Rv0446c/- with Rv2877c/-

Normalized LFCs for Rv0446c/-:
(description and provenance of datasets)

	Rv0446c/-	Rv2877c/-
Fe_supp_jason_reseq	1.051	0.84
low_pH_jason_reseq	0.186	-0.875
NO_jason_reseq	-0.142	-0.37
B6_jason_reseq	-0.178	0.246
MHCII_jason_reseq	0.678	0.553
Isoniazid02	-0.198	0.639
Rifampicin4	-0.1	0.249
Ethambutol3	0.202	1.203
Meropenem3	0.075	0.253
Vancomycin16	0.072	0.244
Rv2680_day32	-0.628	-0.482
H37Rv_KO_MarP	0.392	0.1
hypoxia_3wks	0.339	0.108
hypoxia_6wks	-0.169	0.244
glycerol	-0.465	-0.455
cholesterol	-0.203	-0.311
AJ	-0.183	0.047
Bibs02	-0.673	-0.101
Bibs02c	0.023	-0.189
BL6	0.684	0.286
BL6a	-0.168	0.009
BXD01	-0.014	0.006
BXD010	-0.139	0.633
BXD011	-0.234	0.904
BXD03	-0.284	0.451
BXD04	0.585	0.225
BXD05	0.541	1.019
BXD06	-0.029	0.247
BXD07	0.171	0.223
BXD08	0.036	0.269
BXD09	0.233	0.25
CAST	-0.224	-0.127
CCcont	-0.227	-0.219
DS01	-0.344	-0.068
DS02	-1.185	0.432
DS04	-0.5	-0.176
DS0c	-0.385	0.237
GP01	-0.175	-0.207
GP02	0.672	0.96
GP0c	-0.119	0.073
NOD	-1.103	-0.495
NZO	0.022	-0.225
PWK	0.053	-0.196
H37Rv_KO_CtpC	-0.755	0.111
H37Rv_KO_CtpD	0.958	0.928
H37Rv_KO_Rv1272	-0.103	-0.346
H37Rv_KO_SugABC	0.613	0.471
H37Rv_KO_MbtN	0.276	0.05
Trans05	0.021	0.316
macrophage_unactivated	0.224	-0.234
IL1	0.021	0.534
Rapamycin	0.322	0.654
Tcell	0.094	0.215
GMCSF	0.349	0.552
IFNab	0.378	0.493
IFNg	1.09	0.273
IFNg_GMCSF1	0.135	0.443
Rv1432_day32	-0.498	0.083
Rv1565c_day32	0.374	0.311
secA2_input	-0.518	-0.069
delta_Rv3594	-1.002	0.02
delta_Rv3717	-0.638	0.198
delta_Rv3811	-0.836	-0.399
delta_Rv0954	0.631	-0.079
PonA1	-0.384	0.47
EccD1_KO	-0.191	0.766
EspI_KO	0.248	0.282
PE35_KO	-0.073	0.831
PPE68_KO	-0.582	0.317
glycerol2	-0.011	0.426
lignocerate	0.253	0.508
oleate	-0.101	-0.023
phosphatidylcholine	-0.066	0.38
acetate	-0.482	-0.209
glucAc	-0.339	0.025
Rv0950ko	0.434	0.341
Rv1096ko	0.694	0.139
Rv3684ko	0.442	0.37
delta_otsA_trehalose	-0.645	0.55