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 Rv2443/dctA

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

	Rv0195/-	Rv2443/dctA
Fe_supp_jason_reseq	0.548	-0.074
low_pH_jason_reseq	-1.151	-1.052
NO_jason_reseq	-0.202	-0.108
B6_jason_reseq	0.657	-0.548
MHCII_jason_reseq	0.35	-0.268
Isoniazid02	-0.761	-0.426
Rifampicin4	-0.734	0.049
Ethambutol3	-0.812	-0.383
Meropenem3	-0.359	0.152
Vancomycin16	-0.411	-0.501
Rv2680_day32	0.043	0.053
H37Rv_KO_MarP	0.515	-0.121
hypoxia_3wks	-0.263	-0.068
hypoxia_6wks	0.04	0.267
glycerol	-0.208	-0.601
cholesterol	-0.314	0.37
AJ	0.129	0.977
Bibs02	0.072	0.424
Bibs02c	-0.641	-0.238
BL6	-0.558	0.607
BL6a	0.014	0.026
BXD01	-0.735	0.443
BXD010	0.867	0.305
BXD011	0.162	0.372
BXD03	-0.41	0.386
BXD04	0.118	0.409
BXD05	0.135	0.023
BXD06	0.0	0.535
BXD07	0.325	0.444
BXD08	-0.197	0.468
BXD09	0.307	0.321
CAST	-0.571	0.469
CCcont	-1.071	-0.236
DS01	0.352	0.224
DS02	0.44	0.224
DS04	-0.356	0.707
DS0c	0.487	0.127
GP01	-0.396	0.029
GP02	1.316	1.221
GP0c	-0.23	-0.023
NOD	-0.869	0.926
NZO	-0.215	0.433
PWK	0.917	1.698
H37Rv_KO_CtpC	0.14	0.021
H37Rv_KO_CtpD	0.101	0.851
H37Rv_KO_Rv1272	0.277	0.262
H37Rv_KO_SugABC	0.662	0.711
H37Rv_KO_MbtN	0.578	0.026
Trans05	-0.271	-0.081
macrophage_unactivated	-0.161	0.347
IL1	-0.044	-0.492
Rapamycin	-0.31	-0.488
Tcell	-0.228	-0.14
GMCSF	0.132	0.127
IFNab	0.218	-0.166
IFNg	0.056	0.556
IFNg_GMCSF1	0.676	0.892
Rv1432_day32	0.043	0.262
Rv1565c_day32	0.101	0.889
secA2_input	0.736	-0.728
delta_Rv3594	-0.901	-0.486
delta_Rv3717	-0.675	-0.79
delta_Rv3811	-0.522	-0.431
delta_Rv0954	0.578	0.481
PonA1	0.142	0.369
EccD1_KO	-0.799	-0.332
EspI_KO	-0.904	-0.599
PE35_KO	-1.272	-0.551
PPE68_KO	-1.136	-0.787
glycerol2	-0.844	0.067
lignocerate	-0.851	-0.03
oleate	-0.119	0.492
phosphatidylcholine	-1.08	0.242
acetate	-0.826	-0.258
glucAc	-0.683	-0.762
Rv0950ko	0.1	-0.25
Rv1096ko	-0.268	-0.835
Rv3684ko	-0.547	-0.698
delta_otsA_trehalose	0.138	0.483