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 Rv3026c/-

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

	Rv3736/-	Rv3026c/-
Fe_supp_jason_reseq	-1.176	-0.996
low_pH_jason_reseq	-0.206	-0.427
NO_jason_reseq	-0.31	-0.116
B6_jason_reseq	-0.605	-0.019
MHCII_jason_reseq	-0.367	-0.106
Isoniazid02	-0.068	-1.052
Rifampicin4	0.108	1.107
Ethambutol3	0.338	-0.834
Meropenem3	0.345	-1.204
Vancomycin16	-0.109	-0.061
Rv2680_day32	-0.095	0.44
H37Rv_KO_MarP	0.214	0.137
hypoxia_3wks	-0.506	-0.287
hypoxia_6wks	-0.338	-0.422
glycerol	0.265	0.285
cholesterol	-0.11	-0.383
AJ	1.049	0.218
Bibs02	0.077	0.772
Bibs02c	0.171	0.59
BL6	-0.06	-0.317
BL6a	-0.253	0.032
BXD01	-0.45	-0.297
BXD010	-0.305	-0.527
BXD011	-0.475	-0.227
BXD03	-0.474	-0.759
BXD04	-0.461	0.495
BXD05	-0.053	-0.483
BXD06	-0.236	-0.257
BXD07	-0.245	-0.267
BXD08	-0.141	-0.039
BXD09	-0.434	-0.071
CAST	-0.167	0.823
CCcont	-0.54	-0.356
DS01	-0.084	0.659
DS02	-0.435	0.758
DS04	0.555	0.814
DS0c	0.217	0.658
GP01	-0.221	-0.115
GP02	0.269	1.055
GP0c	0.156	0.243
NOD	-0.612	1.033
NZO	0.247	0.538
PWK	-0.117	0.264
H37Rv_KO_CtpC	-0.265	0.508
H37Rv_KO_CtpD	-0.029	0.166
H37Rv_KO_Rv1272	-0.541	-0.624
H37Rv_KO_SugABC	0.567	0.941
H37Rv_KO_MbtN	-0.473	-0.025
Trans05	-0.382	-1.423
macrophage_unactivated	0.047	-0.508
IL1	-0.439	0.047
Rapamycin	0.021	-0.187
Tcell	-0.222	0.016
GMCSF	-0.499	0.264
IFNab	0.175	-0.505
IFNg	-0.575	-0.414
IFNg_GMCSF1	-0.239	0.456
Rv1432_day32	0.518	-0.186
Rv1565c_day32	-0.073	0.123
secA2_input	-0.106	-0.089
delta_Rv3594	-0.194	-0.385
delta_Rv3717	0.092	-0.02
delta_Rv3811	0.126	-0.294
delta_Rv0954	0.043	-0.337
PonA1	0.306	0.463
EccD1_KO	1.006	0.332
EspI_KO	0.436	0.382
PE35_KO	0.21	0.391
PPE68_KO	0.25	0.029
glycerol2	0.509	0.626
lignocerate	0.217	0.597
oleate	0.594	0.241
phosphatidylcholine	0.979	0.695
acetate	-0.451	0.218
glucAc	-0.25	0.176
Rv0950ko	0.684	0.694
Rv1096ko	0.645	0.811
Rv3684ko	0.616	1.077
delta_otsA_trehalose	-1.076	-2.21