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 Rv1257c/-:

update plot	correlation	link to info on gene
Rv2334/cysK1	(cc=0.4709)	info on Rv2334/cysK1
Rv2335/cysE	(cc=0.4236)	info on Rv2335/cysE
Rv0321/dcd	(cc=0.4208)	info on Rv0321/dcd
Rv1778c/-	(cc=0.4194)	info on Rv1778c/-
Rv1681/moeX	(cc=0.4127)	info on Rv1681/moeX
Rv3466/-	(cc=0.4097)	info on Rv3466/-
Rv0892/-	(cc=0.405)	info on Rv0892/-
Rv0526/-	(cc=0.3951)	info on Rv0526/-
Rv3714c/-	(cc=0.3919)	info on Rv3714c/-
Rv0078/-	(cc=0.3893)	info on Rv0078/-

Correlation of Rv1257c/- with Rv3466/-

Normalized LFCs for Rv1257c/-:
(description and provenance of datasets)

	Rv1257c/-	Rv3466/-
Fe_supp_jason_reseq	1.328	0.194
low_pH_jason_reseq	0.099	-0.049
NO_jason_reseq	1.168	0.459
B6_jason_reseq	0.427	0.047
MHCII_jason_reseq	0.234	-0.457
Isoniazid02	1.196	0.665
Rifampicin4	0.179	0.669
Ethambutol3	1.164	-0.061
Meropenem3	-0.125	-0.186
Vancomycin16	0.088	0.485
Rv2680_day32	-0.586	-1.061
H37Rv_KO_MarP	0.694	-0.161
hypoxia_3wks	0.096	-0.363
hypoxia_6wks	0.05	-0.887
glycerol	-0.339	-0.443
cholesterol	-0.371	-0.529
AJ	0.047	0.398
Bibs02	-0.518	1.02
Bibs02c	0.85	0.925
BL6	-0.725	-0.309
BL6a	1.102	0.931
BXD01	0.6	0.478
BXD010	1.13	-0.058
BXD011	0.207	-0.315
BXD03	0.471	0.683
BXD04	-0.052	0.511
BXD05	0.041	0.168
BXD06	0.157	0.127
BXD07	0.309	0.486
BXD08	0.193	0.425
BXD09	-0.153	0.331
CAST	0.205	0.287
CCcont	-0.215	-0.348
DS01	0.527	1.177
DS02	0.485	1.478
DS04	-0.326	0.885
DS0c	0.773	0.83
GP01	-0.393	0.464
GP02	0.338	0.902
GP0c	0.634	0.838
NOD	1.604	-0.29
NZO	0.377	0.228
PWK	0.266	0.705
H37Rv_KO_CtpC	0.672	0.896
H37Rv_KO_CtpD	0.051	-0.823
H37Rv_KO_Rv1272	-0.272	0.134
H37Rv_KO_SugABC	0.088	-1.127
H37Rv_KO_MbtN	-1.173	-0.854
Trans05	0.28	0.678
macrophage_unactivated	-0.073	-0.685
IL1	0.483	-0.697
Rapamycin	-0.037	-1.071
Tcell	0.147	-0.828
GMCSF	-0.092	-0.573
IFNab	0.647	-0.656
IFNg	-0.708	-1.382
IFNg_GMCSF1	-0.792	0.33
Rv1432_day32	-0.321	-0.073
Rv1565c_day32	-0.027	0.946
secA2_input	-1.268	-0.269
delta_Rv3594	-0.564	-0.255
delta_Rv3717	-0.561	-0.371
delta_Rv3811	-0.76	-1.139
delta_Rv0954	0.0	0.249
PonA1	-0.155	-0.274
EccD1_KO	-0.043	-0.247
EspI_KO	0.451	0.433
PE35_KO	0.219	0.557
PPE68_KO	-0.042	0.272
glycerol2	-1.149	-1.213
lignocerate	-0.606	-0.906
oleate	-0.922	-1.202
phosphatidylcholine	-0.437	-0.84
acetate	-0.6	0.268
glucAc	-0.632	-0.348
Rv0950ko	0.371	-1.146
Rv1096ko	0.914	-0.283
Rv3684ko	0.684	-0.694
delta_otsA_trehalose	0.429	0.87