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 Rv3023c/-

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

	Rv2666/-	Rv3023c/-
Fe_supp_jason_reseq	-0.736	-0.908
low_pH_jason_reseq	-0.172	-0.186
NO_jason_reseq	-0.134	-0.155
B6_jason_reseq	-0.504	-0.704
MHCII_jason_reseq	-0.307	-0.428
Isoniazid02	-0.626	-1.075
Rifampicin4	0.374	0.257
Ethambutol3	-0.403	-0.631
Meropenem3	0.846	-0.294
Vancomycin16	-0.658	-0.82
Rv2680_day32	0.419	0.098
H37Rv_KO_MarP	0.03	-0.222
hypoxia_3wks	0.255	-0.215
hypoxia_6wks	-0.666	-0.785
glycerol	0.367	0.234
cholesterol	-0.126	-0.17
AJ	0.951	0.931
Bibs02	0.486	1.028
Bibs02c	1.985	1.42
BL6	0.662	0.027
BL6a	0.867	0.809
BXD01	0.487	0.532
BXD010	0.372	0.523
BXD011	0.476	0.257
BXD03	0.61	0.679
BXD04	0.489	0.743
BXD05	0.835	0.952
BXD06	0.621	0.575
BXD07	1.017	0.823
BXD08	0.0	0.328
BXD09	0.397	0.453
CAST	1.086	0.762
CCcont	-0.08	0.065
DS01	0.512	0.366
DS02	1.336	0.985
DS04	1.301	0.528
DS0c	0.979	0.837
GP01	0.828	0.433
GP02	0.317	0.489
GP0c	0.578	0.32
NOD	1.287	0.688
NZO	0.498	0.578
PWK	0.705	0.466
H37Rv_KO_CtpC	1.244	1.194
H37Rv_KO_CtpD	1.05	0.662
H37Rv_KO_Rv1272	1.122	0.747
H37Rv_KO_SugABC	0.807	1.049
H37Rv_KO_MbtN	0.558	0.437
Trans05	1.401	1.11
macrophage_unactivated	-0.17	0.268
IL1	0.937	0.925
Rapamycin	-0.132	0.638
Tcell	-1.183	-1.039
GMCSF	0.718	0.85
IFNab	0.46	0.29
IFNg	-0.144	0.032
IFNg_GMCSF1	0.355	0.688
Rv1432_day32	-0.279	-0.402
Rv1565c_day32	-0.079	0.253
secA2_input	-0.344	-0.139
delta_Rv3594	-0.347	0.104
delta_Rv3717	-0.457	-0.37
delta_Rv3811	0.045	0.0
delta_Rv0954	0.052	-0.056
PonA1	-0.859	-0.716
EccD1_KO	-0.681	-0.408
EspI_KO	-0.066	0.083
PE35_KO	0.44	1.0
PPE68_KO	-0.035	0.278
glycerol2	-1.153	-1.386
lignocerate	-0.774	-1.078
oleate	-1.104	-1.171
phosphatidylcholine	-0.811	-1.104
acetate	1.49	0.685
glucAc	0.446	-0.081
Rv0950ko	-0.033	0.0
Rv1096ko	-0.139	-0.489
Rv3684ko	-0.593	-0.301
delta_otsA_trehalose	-0.722	-0.437