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 Rv3680/-:

update plot	correlation	link to info on gene
Rv3679/-	(cc=0.6755)	info on Rv3679/-
Rv0505c/serB1	(cc=0.6554)	info on Rv0505c/serB1
Rv1421/-	(cc=0.6354)	info on Rv1421/-
Rv2837c/-	(cc=0.6279)	info on Rv2837c/-
Rv3215/entC	(cc=0.5995)	info on Rv3215/entC
Rv0998/-	(cc=0.5957)	info on Rv0998/-
Rv2966c/-	(cc=0.5688)	info on Rv2966c/-
Rv1821/secA2	(cc=0.5413)	info on Rv1821/secA2
Rv2553c/-	(cc=0.5391)	info on Rv2553c/-
Rv1856c/-	(cc=0.524)	info on Rv1856c/-

Correlation of Rv3680/- with Rv1821/secA2

Normalized LFCs for Rv3680/-:
(description and provenance of datasets)

	Rv3680/-	Rv1821/secA2
Fe_supp_jason_reseq	1.689	2.155
low_pH_jason_reseq	1.673	-0.151
NO_jason_reseq	0.0	-0.761
B6_jason_reseq	0.0	-0.322
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-1.072	0.105
Rifampicin4	-0.474	-2.039
Ethambutol3	-0.59	-1.437
Meropenem3	-0.21	-1.288
Vancomycin16	-0.464	-3.136
Rv2680_day32	0.0	0.249
H37Rv_KO_MarP	-0.766	-4.953
hypoxia_3wks	-0.55	-1.571
hypoxia_6wks	-0.288	-0.823
glycerol	2.455	0.385
cholesterol	1.612	1.678
AJ	0.0	-0.815
Bibs02	1.015	-0.642
Bibs02c	1.822	-0.336
BL6	0.0	-0.077
BL6a	1.812	-0.185
BXD01	0.358	-0.256
BXD010	0.128	0.276
BXD011	1.109	0.21
BXD03	0.75	-0.863
BXD04	0.34	0.409
BXD05	0.369	-0.171
BXD06	1.035	0.04
BXD07	0.38	-0.375
BXD08	0.253	0.0
BXD09	0.69	-0.131
CAST	0.0	-1.118
CCcont	1.765	2.352
DS01	0.83	0.07
DS02	0.217	0.9
DS04	1.301	-0.059
DS0c	0.413	0.245
GP01	0.0	0.408
GP02	0.0	-0.861
GP0c	0.0	0.564
NOD	0.0	-0.441
NZO	0.0	-0.54
PWK	0.0	-0.06
H37Rv_KO_CtpC	0.162	-0.788
H37Rv_KO_CtpD	0.445	-0.295
H37Rv_KO_Rv1272	0.0	0.434
H37Rv_KO_SugABC	0.768	1.204
H37Rv_KO_MbtN	0.691	1.345
Trans05	0.0	0.459
macrophage_unactivated	0.436	0.922
IL1	0.0	0.172
Rapamycin	0.0	0.746
Tcell	0.857	0.629
GMCSF	0.0	-0.325
IFNab	0.0	0.81
IFNg	0.0	0.716
IFNg_GMCSF1	0.0	0.091
Rv1432_day32	0.0	-0.227
Rv1565c_day32	0.0	-1.03
secA2_input	-2.069	-3.397
delta_Rv3594	1.895	1.048
delta_Rv3717	3.237	1.74
delta_Rv3811	2.787	1.365
delta_Rv0954	0.375	-0.009
PonA1	1.599	-0.74
EccD1_KO	0.635	-0.082
EspI_KO	0.878	-0.311
PE35_KO	0.735	-0.295
PPE68_KO	1.245	0.051
glycerol2	-0.193	-1.017
lignocerate	-0.168	-1.736
oleate	-0.196	-0.878
phosphatidylcholine	-0.193	-1.448
acetate	0.743	-0.115
glucAc	0.462	-0.536
Rv0950ko	-1.9	-1.119
Rv1096ko	-2.111	-0.787
Rv3684ko	-2.663	-0.455
delta_otsA_trehalose	0.895	-1.768