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 Rv3172c/-:

update plot	correlation	link to info on gene
Rv3747/-	(cc=0.5001)	info on Rv3747/-
Rv2960c/-	(cc=0.4806)	info on Rv2960c/-
Rv3174/-	(cc=0.4735)	info on Rv3174/-
Rv0854/-	(cc=0.468)	info on Rv0854/-
Rv1290c/-	(cc=0.4656)	info on Rv1290c/-
Rv2958c/-	(cc=0.4401)	info on Rv2958c/-
Rv2809/-	(cc=0.435)	info on Rv2809/-
Rv2970A/-	(cc=0.4304)	info on Rv2970A/-
Rv3660c/-	(cc=0.4285)	info on Rv3660c/-
Rv1915/aceAa	(cc=0.4157)	info on Rv1915/aceAa

Correlation of Rv3172c/- with Rv3174/-

Normalized LFCs for Rv3172c/-:
(description and provenance of datasets)

	Rv3172c/-	Rv3174/-
Fe_supp_jason_reseq	0.672	0.159
low_pH_jason_reseq	-0.617	0.99
NO_jason_reseq	0.32	-1.454
B6_jason_reseq	0.496	-0.145
MHCII_jason_reseq	0.991	0.243
Isoniazid02	1.98	4.617
Rifampicin4	0.032	0.49
Ethambutol3	1.927	4.904
Meropenem3	-0.966	-0.151
Vancomycin16	-0.485	0.125
Rv2680_day32	0.157	0.063
H37Rv_KO_MarP	0.08	0.317
hypoxia_3wks	-0.423	0.833
hypoxia_6wks	-0.459	0.921
glycerol	-2.279	0.083
cholesterol	-0.317	-0.534
AJ	-0.983	-0.676
Bibs02	-0.061	0.331
Bibs02c	0.055	0.906
BL6	0.471	1.413
BL6a	0.303	1.167
BXD01	0.25	1.092
BXD010	-0.433	1.144
BXD011	-0.087	0.44
BXD03	0.324	0.323
BXD04	-0.119	0.592
BXD05	0.438	0.726
BXD06	0.421	0.786
BXD07	-0.216	0.953
BXD08	0.445	1.063
BXD09	0.124	1.187
CAST	0.118	0.157
CCcont	0.662	0.633
DS01	0.106	-0.358
DS02	-0.547	-0.095
DS04	-0.052	0.233
DS0c	-0.338	-0.844
GP01	0.644	1.235
GP02	-0.369	0.463
GP0c	-0.089	1.627
NOD	0.317	0.093
NZO	-0.387	-0.087
PWK	-0.629	-0.028
H37Rv_KO_CtpC	0.293	-0.845
H37Rv_KO_CtpD	0.472	1.342
H37Rv_KO_Rv1272	0.141	0.636
H37Rv_KO_SugABC	-0.43	-1.523
H37Rv_KO_MbtN	0.0	-0.69
Trans05	0.858	-0.096
macrophage_unactivated	-0.341	0.514
IL1	-0.635	0.116
Rapamycin	0.132	0.39
Tcell	0.378	0.971
GMCSF	0.0	0.552
IFNab	-0.354	-0.082
IFNg	0.203	0.371
IFNg_GMCSF1	1.351	0.764
Rv1432_day32	-0.162	0.3
Rv1565c_day32	-0.153	0.0
secA2_input	-0.042	0.953
delta_Rv3594	-0.493	-0.679
delta_Rv3717	-0.773	-0.559
delta_Rv3811	-0.375	-0.416
delta_Rv0954	-0.447	0.018
PonA1	-0.532	-0.227
EccD1_KO	-0.493	-0.477
EspI_KO	-0.359	-0.365
PE35_KO	0.423	0.0
PPE68_KO	0.56	-0.518
glycerol2	0.5	0.387
lignocerate	1.199	0.452
oleate	-0.191	0.991
phosphatidylcholine	0.725	0.618
acetate	0.918	-0.066
glucAc	0.955	0.516
Rv0950ko	-0.769	1.07
Rv1096ko	-0.341	1.125
Rv3684ko	-0.521	0.848
delta_otsA_trehalose	-0.074	0.859