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 Rv1366/-:

update plot	correlation	link to info on gene
Rv3749c/-	(cc=0.6056)	info on Rv3749c/-
Rv2078/-	(cc=0.5622)	info on Rv2078/-
Rv1913/-	(cc=0.5434)	info on Rv1913/-
Rv1013/pks16	(cc=0.5409)	info on Rv1013/pks16
Rv2287/yjcE	(cc=0.5232)	info on Rv2287/yjcE
Rv1751/-	(cc=0.5193)	info on Rv1751/-
Rv3697c/vapC48	(cc=0.5103)	info on Rv3697c/vapC48
Rv3819/-	(cc=0.4989)	info on Rv3819/-
Rv0226c/-	(cc=0.4983)	info on Rv0226c/-
Rv0235c/-	(cc=0.4943)	info on Rv0235c/-

Correlation of Rv1366/- with Rv1751/-

Normalized LFCs for Rv1366/-:
(description and provenance of datasets)

	Rv1366/-	Rv1751/-
Fe_supp_jason_reseq	-0.884	-0.385
low_pH_jason_reseq	-0.172	0.654
NO_jason_reseq	-0.294	-0.05
B6_jason_reseq	-0.871	-0.933
MHCII_jason_reseq	-0.267	-0.553
Isoniazid02	0.148	-0.389
Rifampicin4	-0.376	-0.081
Ethambutol3	0.269	-0.201
Meropenem3	0.237	-0.593
Vancomycin16	0.172	-0.268
Rv2680_day32	-0.969	0.99
H37Rv_KO_MarP	0.518	-0.44
hypoxia_3wks	-0.235	-0.415
hypoxia_6wks	-0.048	-1.036
glycerol	-0.78	-0.885
cholesterol	-0.44	-0.375
AJ	0.134	0.425
Bibs02	-0.823	-0.164
Bibs02c	0.656	0.227
BL6	0.376	1.018
BL6a	0.397	0.631
BXD01	0.834	0.482
BXD010	1.115	0.973
BXD011	0.35	0.593
BXD03	-0.278	0.296
BXD04	0.315	1.29
BXD05	0.231	0.31
BXD06	0.323	0.396
BXD07	0.476	0.455
BXD08	0.506	0.668
BXD09	-0.012	0.078
CAST	-0.142	-0.207
CCcont	0.646	0.982
DS01	0.301	0.257
DS02	-0.254	-0.685
DS04	0.263	1.058
DS0c	0.525	0.0
GP01	1.227	0.478
GP02	1.296	0.688
GP0c	0.54	0.653
NOD	0.148	0.244
NZO	0.839	0.757
PWK	0.406	-0.028
H37Rv_KO_CtpC	0.467	0.43
H37Rv_KO_CtpD	-0.907	-1.65
H37Rv_KO_Rv1272	0.341	0.079
H37Rv_KO_SugABC	0.902	0.606
H37Rv_KO_MbtN	0.392	0.891
Trans05	0.557	0.496
macrophage_unactivated	0.107	0.123
IL1	-0.739	-0.765
Rapamycin	-0.681	0.347
Tcell	0.694	-0.042
GMCSF	-1.117	-0.517
IFNab	-0.593	-0.593
IFNg	-1.384	-0.254
IFNg_GMCSF1	-1.628	-0.167
Rv1432_day32	-0.55	-0.763
Rv1565c_day32	0.175	0.625
secA2_input	-0.188	-0.515
delta_Rv3594	-0.249	0.716
delta_Rv3717	0.371	0.108
delta_Rv3811	-0.665	1.08
delta_Rv0954	0.813	0.176
PonA1	0.726	0.668
EccD1_KO	-0.276	-0.22
EspI_KO	0.262	-0.046
PE35_KO	0.379	0.321
PPE68_KO	0.534	0.637
glycerol2	1.188	0.021
lignocerate	1.47	0.638
oleate	0.387	-0.675
phosphatidylcholine	1.27	0.238
acetate	1.549	0.708
glucAc	1.226	1.36
Rv0950ko	0.856	-0.308
Rv1096ko	0.32	0.642
Rv3684ko	0.534	-0.052
delta_otsA_trehalose	1.077	1.676