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 Rv0068/-:

update plot	correlation	link to info on gene
Rv3762c/-	(cc=0.4881)	info on Rv3762c/-
Rv0369c/-	(cc=0.472)	info on Rv0369c/-
Rv1496/-	(cc=0.4695)	info on Rv1496/-
Rv3108/-	(cc=0.4644)	info on Rv3108/-
Rv0844c/narL	(cc=0.4525)	info on Rv0844c/narL
Rv1517/-	(cc=0.4492)	info on Rv1517/-
Rv2151c/ftsQ	(cc=0.4403)	info on Rv2151c/ftsQ
Rv2758c/vapB21	(cc=0.4365)	info on Rv2758c/vapB21
Rv3398c/idsA1	(cc=0.434)	info on Rv3398c/idsA1
Rv3828c/-	(cc=0.432)	info on Rv3828c/-

Correlation of Rv0068/- with Rv1496/-

Normalized LFCs for Rv0068/-:
(description and provenance of datasets)

	Rv0068/-	Rv1496/-
Fe_supp_jason_reseq	1.209	1.225
low_pH_jason_reseq	-0.487	-0.172
NO_jason_reseq	0.055	-0.462
B6_jason_reseq	-0.62	-1.166
MHCII_jason_reseq	-1.187	-1.939
Isoniazid02	0.067	1.441
Rifampicin4	-0.309	-0.379
Ethambutol3	-0.159	1.459
Meropenem3	-0.188	0.184
Vancomycin16	0.3	-0.289
Rv2680_day32	0.158	0.208
H37Rv_KO_MarP	0.93	-0.47
hypoxia_3wks	0.179	0.67
hypoxia_6wks	0.203	-0.299
glycerol	-0.205	0.186
cholesterol	0.727	0.81
AJ	0.101	-1.002
Bibs02	-0.657	-0.152
Bibs02c	-0.796	-1.061
BL6	0.515	0.926
BL6a	0.0	-0.271
BXD01	0.503	0.692
BXD010	0.304	1.726
BXD011	0.0	0.963
BXD03	0.949	0.867
BXD04	0.801	2.068
BXD05	-0.03	0.953
BXD06	0.348	0.514
BXD07	0.108	0.875
BXD08	0.26	1.377
BXD09	0.031	0.786
CAST	-0.369	-0.584
CCcont	0.836	1.924
DS01	-0.337	-1.138
DS02	-0.424	-2.568
DS04	-0.103	-1.436
DS0c	0.17	-1.403
GP01	0.117	2.198
GP02	-0.307	0.113
GP0c	-0.289	1.915
NOD	-0.19	-1.453
NZO	-0.461	-1.118
PWK	0.578	0.122
H37Rv_KO_CtpC	0.568	-0.379
H37Rv_KO_CtpD	1.114	1.685
H37Rv_KO_Rv1272	0.267	0.324
H37Rv_KO_SugABC	1.087	-0.641
H37Rv_KO_MbtN	0.72	1.89
Trans05	0.198	0.882
macrophage_unactivated	0.912	0.319
IL1	0.629	0.825
Rapamycin	0.451	1.126
Tcell	1.271	0.31
GMCSF	0.388	1.516
IFNab	0.444	0.538
IFNg	0.214	1.761
IFNg_GMCSF1	0.17	0.789
Rv1432_day32	0.519	0.0
Rv1565c_day32	0.25	0.058
secA2_input	0.111	-0.873
delta_Rv3594	-0.338	-0.699
delta_Rv3717	-0.703	-0.162
delta_Rv3811	-0.265	0.251
delta_Rv0954	-0.651	-1.087
PonA1	0.639	0.316
EccD1_KO	0.372	1.059
EspI_KO	-0.436	-0.513
PE35_KO	0.175	0.318
PPE68_KO	0.157	0.512
glycerol2	0.595	-0.509
lignocerate	0.401	-0.061
oleate	0.55	0.323
phosphatidylcholine	0.525	0.141
acetate	-0.219	-0.042
glucAc	-0.089	-0.318
Rv0950ko	0.467	1.173
Rv1096ko	0.926	0.875
Rv3684ko	-0.406	1.13
delta_otsA_trehalose	-0.913	0.014