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 Rv3840/-

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

	Rv0195/-	Rv3840/-
Fe_supp_jason_reseq	0.548	-0.158
low_pH_jason_reseq	-1.151	-1.121
NO_jason_reseq	-0.202	0.129
B6_jason_reseq	0.657	-0.108
MHCII_jason_reseq	0.35	-0.192
Isoniazid02	-0.761	-0.764
Rifampicin4	-0.734	-0.374
Ethambutol3	-0.812	-0.652
Meropenem3	-0.359	0.43
Vancomycin16	-0.411	-0.584
Rv2680_day32	0.043	0.162
H37Rv_KO_MarP	0.515	0.182
hypoxia_3wks	-0.263	0.191
hypoxia_6wks	0.04	0.311
glycerol	-0.208	-0.032
cholesterol	-0.314	0.119
AJ	0.129	0.21
Bibs02	0.072	0.123
Bibs02c	-0.641	-0.69
BL6	-0.558	0.27
BL6a	0.014	-0.059
BXD01	-0.735	0.375
BXD010	0.867	0.567
BXD011	0.162	0.188
BXD03	-0.41	0.728
BXD04	0.118	0.453
BXD05	0.135	0.83
BXD06	0.0	0.55
BXD07	0.325	0.367
BXD08	-0.197	0.353
BXD09	0.307	0.68
CAST	-0.571	0.402
CCcont	-1.071	-0.058
DS01	0.352	0.05
DS02	0.44	0.537
DS04	-0.356	0.233
DS0c	0.487	0.167
GP01	-0.396	0.636
GP02	1.316	1.625
GP0c	-0.23	0.811
NOD	-0.869	0.439
NZO	-0.215	-0.095
PWK	0.917	0.323
H37Rv_KO_CtpC	0.14	0.238
H37Rv_KO_CtpD	0.101	0.113
H37Rv_KO_Rv1272	0.277	0.542
H37Rv_KO_SugABC	0.662	0.935
H37Rv_KO_MbtN	0.578	0.526
Trans05	-0.271	-0.102
macrophage_unactivated	-0.161	-0.076
IL1	-0.044	-0.208
Rapamycin	-0.31	0.47
Tcell	-0.228	0.166
GMCSF	0.132	0.111
IFNab	0.218	0.49
IFNg	0.056	0.2
IFNg_GMCSF1	0.676	0.101
Rv1432_day32	0.043	0.349
Rv1565c_day32	0.101	0.039
secA2_input	0.736	0.377
delta_Rv3594	-0.901	-0.415
delta_Rv3717	-0.675	0.074
delta_Rv3811	-0.522	-0.164
delta_Rv0954	0.578	-0.225
PonA1	0.142	-0.421
EccD1_KO	-0.799	-0.431
EspI_KO	-0.904	-0.191
PE35_KO	-1.272	-0.537
PPE68_KO	-1.136	-0.576
glycerol2	-0.844	0.314
lignocerate	-0.851	-0.073
oleate	-0.119	0.625
phosphatidylcholine	-1.08	0.108
acetate	-0.826	-0.487
glucAc	-0.683	-0.564
Rv0950ko	0.1	0.697
Rv1096ko	-0.268	0.0
Rv3684ko	-0.547	0.049
delta_otsA_trehalose	0.138	-1.073