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 Rv3043c/ctaD:

update plot	correlation	link to info on gene
Rv1458c/-	(cc=0.6387)	info on Rv1458c/-
Rv0701/rplC	(cc=0.5852)	info on Rv0701/rplC
Rv3710/leuA	(cc=0.5752)	info on Rv3710/leuA
Rv3449/mycP4	(cc=0.5664)	info on Rv3449/mycP4
Rv1177/fdxC	(cc=0.5405)	info on Rv1177/fdxC
Rv1457c/-	(cc=0.5398)	info on Rv1457c/-
Rv0651/rplJ	(cc=0.5279)	info on Rv0651/rplJ
Rv0736/rslA	(cc=0.5269)	info on Rv0736/rslA
Rv2603c/-	(cc=0.5181)	info on Rv2603c/-
Rv0358/-	(cc=0.5167)	info on Rv0358/-

Correlation of Rv3043c/ctaD with Rv0651/rplJ

Normalized LFCs for Rv3043c/ctaD:
(description and provenance of datasets)

	Rv3043c/ctaD	Rv0651/rplJ
Fe_supp_jason_reseq	0.598	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.69	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.135
Isoniazid02	-0.383	0.0
Rifampicin4	0.311	0.0
Ethambutol3	0.14	0.0
Meropenem3	-0.315	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.423	0.0
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.202	0.0
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.238	0.0
BL6a	0.0	0.0
BXD01	0.13	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.133	0.0
BXD09	0.14	0.0
CAST	0.0	0.0
CCcont	0.525	0.0
DS01	0.236	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.199	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.703	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.189	0.0
H37Rv_KO_MbtN	0.103	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.45	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	1.694	2.481
delta_Rv3594	-0.402	0.0
delta_Rv3717	-0.331	0.0
delta_Rv3811	-0.187	0.0
delta_Rv0954	0.0	0.0
PonA1	0.851	0.159
EccD1_KO	-0.73	0.0
EspI_KO	-0.633	0.0
PE35_KO	-0.648	0.0
PPE68_KO	-0.71	0.0
glycerol2	-0.82	0.0
lignocerate	-0.712	0.0
oleate	-0.829	0.0
phosphatidylcholine	-0.626	0.0
acetate	-0.535	0.0
glucAc	-0.103	0.0
Rv0950ko	0.0	0.0
Rv1096ko	-0.347	0.0
Rv3684ko	-0.377	0.0
delta_otsA_trehalose	-0.103	0.0