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 Rv3104c/-:

update plot	correlation	link to info on gene
Rv1128c/-	(cc=0.4738)	info on Rv1128c/-
Rv1752/-	(cc=0.4619)	info on Rv1752/-
Rv0778/cyp126	(cc=0.4422)	info on Rv0778/cyp126
Rv0587/yrbE2A	(cc=0.4378)	info on Rv0587/yrbE2A
Rv3857c/-	(cc=0.4356)	info on Rv3857c/-
Rv3779/-	(cc=0.4352)	info on Rv3779/-
Rv1533/-	(cc=0.434)	info on Rv1533/-
Rv2824c/-	(cc=0.4263)	info on Rv2824c/-
Rv0380c/-	(cc=0.4129)	info on Rv0380c/-
Rv0619/galTb	(cc=0.4119)	info on Rv0619/galTb

Correlation of Rv3104c/- with Rv1128c/-

Normalized LFCs for Rv3104c/-:
(description and provenance of datasets)

	Rv3104c/-	Rv1128c/-
Fe_supp_jason_reseq	1.44	1.403
low_pH_jason_reseq	-0.574	0.254
NO_jason_reseq	-0.704	-1.137
B6_jason_reseq	-0.434	-0.403
MHCII_jason_reseq	0.884	-0.355
Isoniazid02	0.127	0.175
Rifampicin4	0.192	0.325
Ethambutol3	-0.592	0.074
Meropenem3	0.458	0.4
Vancomycin16	-0.175	0.753
Rv2680_day32	-0.354	0.715
H37Rv_KO_MarP	0.765	0.467
hypoxia_3wks	1.188	0.371
hypoxia_6wks	1.566	0.0
glycerol	0.278	-0.168
cholesterol	-0.34	-0.475
AJ	-0.445	0.578
Bibs02	-0.16	-0.234
Bibs02c	-0.42	-0.805
BL6	0.101	0.312
BL6a	0.344	0.364
BXD01	0.493	0.994
BXD010	0.367	0.435
BXD011	0.358	0.396
BXD03	0.073	0.053
BXD04	1.237	1.334
BXD05	1.169	0.675
BXD06	0.24	0.566
BXD07	0.855	1.608
BXD08	0.73	1.091
BXD09	0.447	0.838
CAST	-0.384	-0.192
CCcont	0.608	0.592
DS01	-0.226	0.589
DS02	0.287	-0.279
DS04	-0.829	0.659
DS0c	0.679	0.0
GP01	-0.313	0.961
GP02	-0.321	0.064
GP0c	0.359	1.224
NOD	0.905	-0.093
NZO	0.027	0.433
PWK	0.081	0.489
H37Rv_KO_CtpC	0.723	1.005
H37Rv_KO_CtpD	1.029	1.504
H37Rv_KO_Rv1272	-0.168	1.373
H37Rv_KO_SugABC	0.33	-0.127
H37Rv_KO_MbtN	0.11	0.936
Trans05	0.131	1.784
macrophage_unactivated	0.464	2.235
IL1	0.768	0.658
Rapamycin	1.467	2.081
Tcell	0.652	1.235
GMCSF	0.409	1.869
IFNab	0.348	1.769
IFNg	0.35	0.911
IFNg_GMCSF1	0.606	0.952
Rv1432_day32	0.789	-0.439
Rv1565c_day32	-1.671	-0.196
secA2_input	0.611	0.839
delta_Rv3594	0.211	0.867
delta_Rv3717	0.0	-0.068
delta_Rv3811	-0.126	0.226
delta_Rv0954	0.981	-0.655
PonA1	0.233	-0.34
EccD1_KO	-0.927	-0.753
EspI_KO	0.063	-0.248
PE35_KO	-0.747	-0.388
PPE68_KO	-0.682	-0.278
glycerol2	-0.46	-0.053
lignocerate	-0.342	-0.095
oleate	-0.323	0.052
phosphatidylcholine	-0.287	-0.053
acetate	-0.642	-0.607
glucAc	-0.365	-1.073
Rv0950ko	0.582	-0.546
Rv1096ko	0.431	0.814
Rv3684ko	0.422	0.648
delta_otsA_trehalose	-1.37	-0.965