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 Rv2296/-:

update plot	correlation	link to info on gene
Rv1733c/-	(cc=0.5323)	info on Rv1733c/-
Rv3120/-	(cc=0.5317)	info on Rv3120/-
Rv2042c/-	(cc=0.5277)	info on Rv2042c/-
Rv2827c/-	(cc=0.5051)	info on Rv2827c/-
Rv2599/-	(cc=0.4852)	info on Rv2599/-
Rv2980/-	(cc=0.4766)	info on Rv2980/-
Rv3736/-	(cc=0.4619)	info on Rv3736/-
Rv2639c/-	(cc=0.4577)	info on Rv2639c/-
Rv2174/mptA	(cc=0.4525)	info on Rv2174/mptA
Rv1646/PE17	(cc=0.4464)	info on Rv1646/PE17

Correlation of Rv2296/- with Rv2042c/-

Normalized LFCs for Rv2296/-:
(description and provenance of datasets)

	Rv2296/-	Rv2042c/-
Fe_supp_jason_reseq	0.044	0.688
low_pH_jason_reseq	-0.146	0.137
NO_jason_reseq	0.192	-0.055
B6_jason_reseq	-0.606	-0.072
MHCII_jason_reseq	-0.186	0.315
Isoniazid02	-0.017	0.02
Rifampicin4	0.152	0.384
Ethambutol3	0.058	2.783
Meropenem3	-0.133	0.063
Vancomycin16	-0.011	0.313
Rv2680_day32	0.351	0.0
H37Rv_KO_MarP	-0.102	0.272
hypoxia_3wks	0.195	0.064
hypoxia_6wks	0.2	-0.351
glycerol	0.0	0.942
cholesterol	-0.134	0.589
AJ	0.146	1.044
Bibs02	0.056	1.056
Bibs02c	0.199	0.831
BL6	-0.164	0.211
BL6a	0.0	-0.053
BXD01	0.284	-0.283
BXD010	0.005	-0.629
BXD011	0.109	-0.626
BXD03	-0.926	-1.535
BXD04	-0.308	0.078
BXD05	0.659	1.035
BXD06	0.018	-0.269
BXD07	0.069	-0.112
BXD08	0.245	0.391
BXD09	-0.019	-0.018
CAST	0.077	0.362
CCcont	-0.679	-0.898
DS01	0.332	0.178
DS02	-0.496	-0.147
DS04	-0.041	-0.391
DS0c	0.707	0.528
GP01	-0.326	-0.053
GP02	1.042	0.277
GP0c	0.061	-0.22
NOD	0.709	0.661
NZO	-0.007	0.485
PWK	0.246	0.374
H37Rv_KO_CtpC	-0.194	0.361
H37Rv_KO_CtpD	0.131	0.806
H37Rv_KO_Rv1272	-0.322	0.018
H37Rv_KO_SugABC	0.325	-1.488
H37Rv_KO_MbtN	-0.014	0.283
Trans05	-0.298	0.161
macrophage_unactivated	0.0	1.348
IL1	-0.528	0.353
Rapamycin	-0.074	0.703
Tcell	-0.371	0.534
GMCSF	-0.18	0.771
IFNab	-0.057	0.29
IFNg	0.283	0.834
IFNg_GMCSF1	-0.408	1.225
Rv1432_day32	0.233	-0.703
Rv1565c_day32	0.287	0.531
secA2_input	0.477	-0.163
delta_Rv3594	0.902	1.234
delta_Rv3717	0.464	1.377
delta_Rv3811	0.857	1.382
delta_Rv0954	-0.045	-0.074
PonA1	0.439	0.447
EccD1_KO	1.204	1.154
EspI_KO	0.73	2.116
PE35_KO	1.205	1.896
PPE68_KO	1.353	2.56
glycerol2	0.601	0.073
lignocerate	0.029	-0.829
oleate	1.0	0.36
phosphatidylcholine	0.402	-0.409
acetate	-0.289	-1.24
glucAc	-0.705	-1.571
Rv0950ko	0.368	1.339
Rv1096ko	-0.299	0.0
Rv3684ko	-0.373	0.318
delta_otsA_trehalose	-1.025	-1.136