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 Rv0358/-

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

	Rv3043c/ctaD	Rv0358/-
Fe_supp_jason_reseq	0.598	0.199
low_pH_jason_reseq	0.0	0.211
NO_jason_reseq	0.69	0.914
B6_jason_reseq	0.0	-0.153
MHCII_jason_reseq	0.0	-0.135
Isoniazid02	-0.383	1.948
Rifampicin4	0.311	0.222
Ethambutol3	0.14	0.0
Meropenem3	-0.315	-0.603
Vancomycin16	0.0	-0.231
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.423	0.756
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	-0.288
glycerol	0.202	0.184
cholesterol	0.0	0.979
AJ	0.0	0.0
Bibs02	0.0	-0.183
Bibs02c	0.0	-0.209
BL6	0.238	-0.125
BL6a	0.0	0.346
BXD01	0.13	0.119
BXD010	0.0	0.0
BXD011	0.0	0.116
BXD03	0.0	0.438
BXD04	0.0	0.0
BXD05	0.0	-0.135
BXD06	0.0	0.432
BXD07	0.0	0.126
BXD08	0.133	0.232
BXD09	0.14	0.245
CAST	0.0	-0.23
CCcont	0.525	0.679
DS01	0.236	0.0
DS02	0.0	-0.217
DS04	0.0	0.628
DS0c	0.0	-0.217
GP01	0.0	-0.099
GP02	0.0	0.0
GP0c	0.0	-0.13
NOD	0.0	-0.225
NZO	0.199	0.0
PWK	0.0	-0.196
H37Rv_KO_CtpC	0.0	-0.162
H37Rv_KO_CtpD	0.703	2.392
H37Rv_KO_Rv1272	0.0	0.457
H37Rv_KO_SugABC	0.189	-0.099
H37Rv_KO_MbtN	0.103	0.26
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.436
IL1	0.0	1.124
Rapamycin	0.0	1.488
Tcell	0.45	0.0
GMCSF	0.0	1.001
IFNab	0.0	0.795
IFNg	0.0	0.369
IFNg_GMCSF1	0.0	0.826
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	1.403
secA2_input	1.694	1.223
delta_Rv3594	-0.402	-0.444
delta_Rv3717	-0.331	-0.468
delta_Rv3811	-0.187	-0.205
delta_Rv0954	0.0	0.578
PonA1	0.851	-0.245
EccD1_KO	-0.73	-2.424
EspI_KO	-0.633	-0.588
PE35_KO	-0.648	-0.443
PPE68_KO	-0.71	-0.841
glycerol2	-0.82	-0.531
lignocerate	-0.712	-0.14
oleate	-0.829	-0.537
phosphatidylcholine	-0.626	-0.338
acetate	-0.535	-0.63
glucAc	-0.103	0.0
Rv0950ko	0.0	-0.534
Rv1096ko	-0.347	-0.727
Rv3684ko	-0.377	-0.58
delta_otsA_trehalose	-0.103	-0.133