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 Rv3736/-:

update plot	correlation	link to info on gene
Rv3056/dinP	(cc=0.5495)	info on Rv3056/dinP
Rv2490c/PE_PGRS43	(cc=0.5169)	info on Rv2490c/PE_PGRS43
Rv1706c/PPE23	(cc=0.5101)	info on Rv1706c/PPE23
Rv0834c/PE_PGRS14	(cc=0.495)	info on Rv0834c/PE_PGRS14
Rv3289c/-	(cc=0.4906)	info on Rv3289c/-
Rv2159c/-	(cc=0.4808)	info on Rv2159c/-
Rv2590/fadD9	(cc=0.4779)	info on Rv2590/fadD9
Rv2062c/cobN	(cc=0.4725)	info on Rv2062c/cobN
Rv3448/eccD4	(cc=0.4712)	info on Rv3448/eccD4
Rv3026c/-	(cc=0.467)	info on Rv3026c/-

Correlation of Rv3736/- with Rv3289c/-

Normalized LFCs for Rv3736/-:
(description and provenance of datasets)

	Rv3736/-	Rv3289c/-
Fe_supp_jason_reseq	-1.176	0.06
low_pH_jason_reseq	-0.206	-0.067
NO_jason_reseq	-0.31	0.798
B6_jason_reseq	-0.605	-0.135
MHCII_jason_reseq	-0.367	-0.798
Isoniazid02	-0.068	0.681
Rifampicin4	0.108	1.102
Ethambutol3	0.338	0.167
Meropenem3	0.345	0.229
Vancomycin16	-0.109	0.955
Rv2680_day32	-0.095	-0.338
H37Rv_KO_MarP	0.214	0.611
hypoxia_3wks	-0.506	0.415
hypoxia_6wks	-0.338	-0.198
glycerol	0.265	0.338
cholesterol	-0.11	0.555
AJ	1.049	0.679
Bibs02	0.077	-0.421
Bibs02c	0.171	-0.34
BL6	-0.06	0.516
BL6a	-0.253	-0.827
BXD01	-0.45	0.376
BXD010	-0.305	-0.109
BXD011	-0.475	-1.363
BXD03	-0.474	0.576
BXD04	-0.461	0.246
BXD05	-0.053	0.481
BXD06	-0.236	-0.57
BXD07	-0.245	0.124
BXD08	-0.141	-0.177
BXD09	-0.434	-0.449
CAST	-0.167	0.234
CCcont	-0.54	-0.231
DS01	-0.084	-0.075
DS02	-0.435	-0.17
DS04	0.555	0.944
DS0c	0.217	-0.289
GP01	-0.221	-0.673
GP02	0.269	1.406
GP0c	0.156	0.498
NOD	-0.612	0.028
NZO	0.247	0.507
PWK	-0.117	-0.063
H37Rv_KO_CtpC	-0.265	0.118
H37Rv_KO_CtpD	-0.029	1.66
H37Rv_KO_Rv1272	-0.541	-0.219
H37Rv_KO_SugABC	0.567	0.818
H37Rv_KO_MbtN	-0.473	0.216
Trans05	-0.382	-0.251
macrophage_unactivated	0.047	0.464
IL1	-0.439	0.374
Rapamycin	0.021	-0.424
Tcell	-0.222	-0.117
GMCSF	-0.499	0.032
IFNab	0.175	0.478
IFNg	-0.575	-0.973
IFNg_GMCSF1	-0.239	-0.27
Rv1432_day32	0.518	-0.061
Rv1565c_day32	-0.073	0.722
secA2_input	-0.106	-0.712
delta_Rv3594	-0.194	-0.577
delta_Rv3717	0.092	-0.672
delta_Rv3811	0.126	-0.509
delta_Rv0954	0.043	-0.68
PonA1	0.306	-0.461
EccD1_KO	1.006	1.493
EspI_KO	0.436	0.933
PE35_KO	0.21	0.505
PPE68_KO	0.25	1.126
glycerol2	0.509	0.488
lignocerate	0.217	0.0
oleate	0.594	1.093
phosphatidylcholine	0.979	0.487
acetate	-0.451	-0.374
glucAc	-0.25	-0.617
Rv0950ko	0.684	-0.072
Rv1096ko	0.645	0.908
Rv3684ko	0.616	0.203
delta_otsA_trehalose	-1.076	-1.847