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 Rv3218/-

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

	Rv0195/-	Rv3218/-
Fe_supp_jason_reseq	0.548	0.069
low_pH_jason_reseq	-1.151	0.626
NO_jason_reseq	-0.202	-0.039
B6_jason_reseq	0.657	0.103
MHCII_jason_reseq	0.35	-0.977
Isoniazid02	-0.761	-0.997
Rifampicin4	-0.734	-0.479
Ethambutol3	-0.812	-0.966
Meropenem3	-0.359	-0.543
Vancomycin16	-0.411	-1.167
Rv2680_day32	0.043	0.234
H37Rv_KO_MarP	0.515	0.319
hypoxia_3wks	-0.263	0.502
hypoxia_6wks	0.04	0.833
glycerol	-0.208	-0.357
cholesterol	-0.314	0.85
AJ	0.129	-0.338
Bibs02	0.072	0.211
Bibs02c	-0.641	0.317
BL6	-0.558	1.984
BL6a	0.014	1.934
BXD01	-0.735	2.36
BXD010	0.867	2.075
BXD011	0.162	2.479
BXD03	-0.41	1.262
BXD04	0.118	2.489
BXD05	0.135	2.15
BXD06	0.0	2.326
BXD07	0.325	2.605
BXD08	-0.197	1.872
BXD09	0.307	2.198
CAST	-0.571	-0.299
CCcont	-1.071	0.557
DS01	0.352	-0.2
DS02	0.44	0.225
DS04	-0.356	0.51
DS0c	0.487	0.303
GP01	-0.396	1.142
GP02	1.316	1.904
GP0c	-0.23	1.108
NOD	-0.869	-0.586
NZO	-0.215	1.334
PWK	0.917	1.225
H37Rv_KO_CtpC	0.14	0.148
H37Rv_KO_CtpD	0.101	1.334
H37Rv_KO_Rv1272	0.277	1.52
H37Rv_KO_SugABC	0.662	1.485
H37Rv_KO_MbtN	0.578	2.303
Trans05	-0.271	1.743
macrophage_unactivated	-0.161	-0.628
IL1	-0.044	0.561
Rapamycin	-0.31	0.822
Tcell	-0.228	0.075
GMCSF	0.132	0.906
IFNab	0.218	0.045
IFNg	0.056	0.43
IFNg_GMCSF1	0.676	-0.487
Rv1432_day32	0.043	0.963
Rv1565c_day32	0.101	-0.682
secA2_input	0.736	0.848
delta_Rv3594	-0.901	-0.846
delta_Rv3717	-0.675	0.467
delta_Rv3811	-0.522	-0.464
delta_Rv0954	0.578	-0.783
PonA1	0.142	-0.658
EccD1_KO	-0.799	-0.516
EspI_KO	-0.904	-1.144
PE35_KO	-1.272	-0.487
PPE68_KO	-1.136	-1.245
glycerol2	-0.844	-0.859
lignocerate	-0.851	-1.679
oleate	-0.119	-1.16
phosphatidylcholine	-1.08	-1.931
acetate	-0.826	-0.6
glucAc	-0.683	-0.508
Rv0950ko	0.1	0.286
Rv1096ko	-0.268	0.0
Rv3684ko	-0.547	0.743
delta_otsA_trehalose	0.138	2.083