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 Rv0195/-:

update plot	correlation	link to info on gene
Rv0144/-	(cc=0.5278)	info on Rv0144/-
Rv2446c/-	(cc=0.5041)	info on Rv2446c/-
Rv3840/-	(cc=0.5004)	info on Rv3840/-
Rv3710/leuA	(cc=0.495)	info on Rv3710/leuA
Rv2443/dctA	(cc=0.4672)	info on Rv2443/dctA
Rv0477/-	(cc=0.4615)	info on Rv0477/-
Rv0397A/-	(cc=0.4611)	info on Rv0397A/-
Rv3043c/ctaD	(cc=0.4531)	info on Rv3043c/ctaD
Rv3218/-	(cc=0.4249)	info on Rv3218/-
Rv0701/rplC	(cc=0.412)	info on Rv0701/rplC

Correlation of Rv0195/- with Rv0477/-

Normalized LFCs for Rv0195/-:
(description and provenance of datasets)

	Rv0195/-	Rv0477/-
Fe_supp_jason_reseq	0.548	0.098
low_pH_jason_reseq	-1.151	-1.051
NO_jason_reseq	-0.202	-0.512
B6_jason_reseq	0.657	0.415
MHCII_jason_reseq	0.35	0.42
Isoniazid02	-0.761	-0.506
Rifampicin4	-0.734	-0.073
Ethambutol3	-0.812	-0.427
Meropenem3	-0.359	-0.14
Vancomycin16	-0.411	-0.554
Rv2680_day32	0.043	-0.178
H37Rv_KO_MarP	0.515	0.302
hypoxia_3wks	-0.263	0.267
hypoxia_6wks	0.04	-0.125
glycerol	-0.208	-0.471
cholesterol	-0.314	0.363
AJ	0.129	-0.195
Bibs02	0.072	-0.162
Bibs02c	-0.641	0.841
BL6	-0.558	-0.034
BL6a	0.014	0.647
BXD01	-0.735	0.627
BXD010	0.867	0.095
BXD011	0.162	0.711
BXD03	-0.41	-0.379
BXD04	0.118	0.398
BXD05	0.135	0.071
BXD06	0.0	0.456
BXD07	0.325	0.236
BXD08	-0.197	0.474
BXD09	0.307	0.305
CAST	-0.571	0.035
CCcont	-1.071	-0.677
DS01	0.352	0.236
DS02	0.44	0.383
DS04	-0.356	0.856
DS0c	0.487	0.426
GP01	-0.396	1.27
GP02	1.316	1.634
GP0c	-0.23	0.372
NOD	-0.869	-0.802
NZO	-0.215	0.993
PWK	0.917	0.577
H37Rv_KO_CtpC	0.14	0.751
H37Rv_KO_CtpD	0.101	0.718
H37Rv_KO_Rv1272	0.277	-0.634
H37Rv_KO_SugABC	0.662	0.701
H37Rv_KO_MbtN	0.578	1.493
Trans05	-0.271	0.698
macrophage_unactivated	-0.161	-0.347
IL1	-0.044	-0.193
Rapamycin	-0.31	-0.479
Tcell	-0.228	-0.345
GMCSF	0.132	0.33
IFNab	0.218	0.278
IFNg	0.056	0.102
IFNg_GMCSF1	0.676	0.236
Rv1432_day32	0.043	0.275
Rv1565c_day32	0.101	-0.742
secA2_input	0.736	0.358
delta_Rv3594	-0.901	-0.107
delta_Rv3717	-0.675	-0.133
delta_Rv3811	-0.522	-0.671
delta_Rv0954	0.578	-0.721
PonA1	0.142	-1.163
EccD1_KO	-0.799	0.082
EspI_KO	-0.904	0.274
PE35_KO	-1.272	-0.866
PPE68_KO	-1.136	-0.49
glycerol2	-0.844	-0.017
lignocerate	-0.851	-0.809
oleate	-0.119	0.768
phosphatidylcholine	-1.08	-0.51
acetate	-0.826	-1.049
glucAc	-0.683	-2.238
Rv0950ko	0.1	1.155
Rv1096ko	-0.268	0.166
Rv3684ko	-0.547	0.868
delta_otsA_trehalose	0.138	0.487