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 Rv3043c/ctaD

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

	Rv0195/-	Rv3043c/ctaD
Fe_supp_jason_reseq	0.548	0.598
low_pH_jason_reseq	-1.151	0.0
NO_jason_reseq	-0.202	0.69
B6_jason_reseq	0.657	0.0
MHCII_jason_reseq	0.35	0.0
Isoniazid02	-0.761	-0.383
Rifampicin4	-0.734	0.311
Ethambutol3	-0.812	0.14
Meropenem3	-0.359	-0.315
Vancomycin16	-0.411	0.0
Rv2680_day32	0.043	0.0
H37Rv_KO_MarP	0.515	0.423
hypoxia_3wks	-0.263	0.0
hypoxia_6wks	0.04	0.0
glycerol	-0.208	0.202
cholesterol	-0.314	0.0
AJ	0.129	0.0
Bibs02	0.072	0.0
Bibs02c	-0.641	0.0
BL6	-0.558	0.238
BL6a	0.014	0.0
BXD01	-0.735	0.13
BXD010	0.867	0.0
BXD011	0.162	0.0
BXD03	-0.41	0.0
BXD04	0.118	0.0
BXD05	0.135	0.0
BXD06	0.0	0.0
BXD07	0.325	0.0
BXD08	-0.197	0.133
BXD09	0.307	0.14
CAST	-0.571	0.0
CCcont	-1.071	0.525
DS01	0.352	0.236
DS02	0.44	0.0
DS04	-0.356	0.0
DS0c	0.487	0.0
GP01	-0.396	0.0
GP02	1.316	0.0
GP0c	-0.23	0.0
NOD	-0.869	0.0
NZO	-0.215	0.199
PWK	0.917	0.0
H37Rv_KO_CtpC	0.14	0.0
H37Rv_KO_CtpD	0.101	0.703
H37Rv_KO_Rv1272	0.277	0.0
H37Rv_KO_SugABC	0.662	0.189
H37Rv_KO_MbtN	0.578	0.103
Trans05	-0.271	0.0
macrophage_unactivated	-0.161	0.0
IL1	-0.044	0.0
Rapamycin	-0.31	0.0
Tcell	-0.228	0.45
GMCSF	0.132	0.0
IFNab	0.218	0.0
IFNg	0.056	0.0
IFNg_GMCSF1	0.676	0.0
Rv1432_day32	0.043	0.0
Rv1565c_day32	0.101	0.0
secA2_input	0.736	1.694
delta_Rv3594	-0.901	-0.402
delta_Rv3717	-0.675	-0.331
delta_Rv3811	-0.522	-0.187
delta_Rv0954	0.578	0.0
PonA1	0.142	0.851
EccD1_KO	-0.799	-0.73
EspI_KO	-0.904	-0.633
PE35_KO	-1.272	-0.648
PPE68_KO	-1.136	-0.71
glycerol2	-0.844	-0.82
lignocerate	-0.851	-0.712
oleate	-0.119	-0.829
phosphatidylcholine	-1.08	-0.626
acetate	-0.826	-0.535
glucAc	-0.683	-0.103
Rv0950ko	0.1	0.0
Rv1096ko	-0.268	-0.347
Rv3684ko	-0.547	-0.377
delta_otsA_trehalose	0.138	-0.103