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 Rv1132/-:

update plot	correlation	link to info on gene
Rv1431/-	(cc=0.4547)	info on Rv1431/-
Rv0813c/-	(cc=0.4416)	info on Rv0813c/-
Rv1233c/-	(cc=0.4202)	info on Rv1233c/-
Rv2404c/lepA	(cc=0.4014)	info on Rv2404c/lepA
Rv1114/vapC32	(cc=0.3998)	info on Rv1114/vapC32
Rv0210/-	(cc=0.3984)	info on Rv0210/-
Rv3479/-	(cc=0.3969)	info on Rv3479/-
Rv2530A/vapB39	(cc=0.3889)	info on Rv2530A/vapB39
Rv0829/-	(cc=0.3854)	info on Rv0829/-
Rv1977/-	(cc=0.3846)	info on Rv1977/-

Correlation of Rv1132/- with Rv2530A/vapB39

Normalized LFCs for Rv1132/-:
(description and provenance of datasets)

	Rv1132/-	Rv2530A/vapB39
Fe_supp_jason_reseq	-0.077	-1.965
low_pH_jason_reseq	-0.579	0.164
NO_jason_reseq	0.517	-0.898
B6_jason_reseq	0.368	0.109
MHCII_jason_reseq	-0.653	-2.36
Isoniazid02	0.185	-0.065
Rifampicin4	0.06	0.726
Ethambutol3	-0.027	0.088
Meropenem3	1.06	0.135
Vancomycin16	0.393	0.191
Rv2680_day32	1.473	1.886
H37Rv_KO_MarP	0.868	0.659
hypoxia_3wks	-0.056	-0.833
hypoxia_6wks	0.219	-0.946
glycerol	0.158	0.544
cholesterol	-0.998	-1.141
AJ	0.35	0.434
Bibs02	-0.265	-1.216
Bibs02c	0.634	-1.234
BL6	-0.422	-0.53
BL6a	0.755	0.957
BXD01	-0.229	-0.264
BXD010	0.37	-0.228
BXD011	0.428	0.26
BXD03	-0.012	0.157
BXD04	0.314	0.372
BXD05	-0.181	0.542
BXD06	0.431	-0.836
BXD07	0.545	-0.058
BXD08	0.2	-0.738
BXD09	-0.189	-0.321
CAST	0.292	1.472
CCcont	-0.041	0.118
DS01	-0.176	-0.364
DS02	-0.707	-0.61
DS04	0.246	-1.528
DS0c	0.31	0.292
GP01	0.442	0.059
GP02	-0.559	0.402
GP0c	-0.648	1.802
NOD	0.267	0.905
NZO	-0.092	2.461
PWK	0.053	0.763
H37Rv_KO_CtpC	-0.153	-1.018
H37Rv_KO_CtpD	0.409	0.968
H37Rv_KO_Rv1272	0.234	1.467
H37Rv_KO_SugABC	0.704	-1.588
H37Rv_KO_MbtN	-0.658	-1.183
Trans05	-0.67	2.214
macrophage_unactivated	-0.789	0.442
IL1	0.875	0.572
Rapamycin	0.565	1.642
Tcell	-0.218	1.47
GMCSF	-0.209	-0.869
IFNab	-0.345	0.26
IFNg	0.668	0.649
IFNg_GMCSF1	-0.471	0.355
Rv1432_day32	2.059	0.666
Rv1565c_day32	-0.368	-1.071
secA2_input	-0.867	1.697
delta_Rv3594	1.557	3.775
delta_Rv3717	1.165	2.848
delta_Rv3811	1.405	3.618
delta_Rv0954	1.043	1.026
PonA1	0.908	2.947
EccD1_KO	0.125	1.523
EspI_KO	0.108	0.841
PE35_KO	0.0	1.114
PPE68_KO	0.182	0.944
glycerol2	0.039	0.213
lignocerate	0.268	1.381
oleate	-0.299	-2.247
phosphatidylcholine	0.258	0.856
acetate	0.446	1.38
glucAc	0.468	1.61
Rv0950ko	0.048	0.733
Rv1096ko	0.048	2.265
Rv3684ko	-0.223	0.521
delta_otsA_trehalose	-0.126	-0.437