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 Rv2666/-:

update plot	correlation	link to info on gene
Rv3023c/-	(cc=0.8829)	info on Rv3023c/-
Rv3115/-	(cc=0.8433)	info on Rv3115/-
Rv1047/-	(cc=0.8402)	info on Rv1047/-
Rv1199c/-	(cc=0.8003)	info on Rv1199c/-
Rv2512c/-	(cc=0.7802)	info on Rv2512c/-
Rv2279/-	(cc=0.694)	info on Rv2279/-
Rv2814c/-	(cc=0.6901)	info on Rv2814c/-
Rv1756c/-	(cc=0.6816)	info on Rv1756c/-
Rv3187/-	(cc=0.6794)	info on Rv3187/-
Rv2479c/-	(cc=0.6775)	info on Rv2479c/-

Correlation of Rv2666/- with Rv2814c/-

Normalized LFCs for Rv2666/-:
(description and provenance of datasets)

	Rv2666/-	Rv2814c/-
Fe_supp_jason_reseq	-0.736	-0.491
low_pH_jason_reseq	-0.172	-0.601
NO_jason_reseq	-0.134	0.0
B6_jason_reseq	-0.504	-0.74
MHCII_jason_reseq	-0.307	-0.237
Isoniazid02	-0.626	-0.113
Rifampicin4	0.374	0.988
Ethambutol3	-0.403	0.514
Meropenem3	0.846	-0.379
Vancomycin16	-0.658	-0.05
Rv2680_day32	0.419	0.171
H37Rv_KO_MarP	0.03	-0.294
hypoxia_3wks	0.255	0.538
hypoxia_6wks	-0.666	-0.017
glycerol	0.367	-0.417
cholesterol	-0.126	0.296
AJ	0.951	1.55
Bibs02	0.486	1.378
Bibs02c	1.985	1.841
BL6	0.662	0.382
BL6a	0.867	1.155
BXD01	0.487	0.778
BXD010	0.372	1.0
BXD011	0.476	1.002
BXD03	0.61	0.992
BXD04	0.489	0.707
BXD05	0.835	1.173
BXD06	0.621	0.66
BXD07	1.017	0.935
BXD08	0.0	0.684
BXD09	0.397	0.85
CAST	1.086	1.532
CCcont	-0.08	0.368
DS01	0.512	1.1
DS02	1.336	1.076
DS04	1.301	1.367
DS0c	0.979	1.336
GP01	0.828	1.378
GP02	0.317	1.49
GP0c	0.578	0.975
NOD	1.287	1.591
NZO	0.498	1.292
PWK	0.705	1.421
H37Rv_KO_CtpC	1.244	0.971
H37Rv_KO_CtpD	1.05	1.046
H37Rv_KO_Rv1272	1.122	0.68
H37Rv_KO_SugABC	0.807	0.901
H37Rv_KO_MbtN	0.558	0.744
Trans05	1.401	1.044
macrophage_unactivated	-0.17	-0.991
IL1	0.937	-0.575
Rapamycin	-0.132	-0.988
Tcell	-1.183	-2.05
GMCSF	0.718	-0.552
IFNab	0.46	-1.206
IFNg	-0.144	-0.951
IFNg_GMCSF1	0.355	-0.682
Rv1432_day32	-0.279	0.484
Rv1565c_day32	-0.079	0.095
secA2_input	-0.344	0.161
delta_Rv3594	-0.347	-0.167
delta_Rv3717	-0.457	-0.247
delta_Rv3811	0.045	-0.219
delta_Rv0954	0.052	0.432
PonA1	-0.859	-0.01
EccD1_KO	-0.681	-0.026
EspI_KO	-0.066	1.038
PE35_KO	0.44	0.543
PPE68_KO	-0.035	0.307
glycerol2	-1.153	-1.08
lignocerate	-0.774	-0.704
oleate	-1.104	-1.253
phosphatidylcholine	-0.811	-0.964
acetate	1.49	0.105
glucAc	0.446	0.086
Rv0950ko	-0.033	-0.109
Rv1096ko	-0.139	-0.133
Rv3684ko	-0.593	-0.842
delta_otsA_trehalose	-0.722	0.219