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 Rv0690c/-:

update plot	correlation	link to info on gene
Rv2980/-	(cc=0.5539)	info on Rv2980/-
Rv2504c/scoA	(cc=0.5398)	info on Rv2504c/scoA
Rv3571/kshB	(cc=0.4989)	info on Rv3571/kshB
Rv2359/zur	(cc=0.4857)	info on Rv2359/zur
Rv1930c/-	(cc=0.4459)	info on Rv1930c/-
Rv3492c/-	(cc=0.4313)	info on Rv3492c/-
Rv1456c/-	(cc=0.4253)	info on Rv1456c/-
Rv3074/-	(cc=0.4227)	info on Rv3074/-
Rv3055/-	(cc=0.4211)	info on Rv3055/-
Rv0087/hycE	(cc=0.4174)	info on Rv0087/hycE

Correlation of Rv0690c/- with Rv0087/hycE

Normalized LFCs for Rv0690c/-:
(description and provenance of datasets)

	Rv0690c/-	Rv0087/hycE
Fe_supp_jason_reseq	-0.223	-0.805
low_pH_jason_reseq	-0.663	0.669
NO_jason_reseq	-0.234	-0.806
B6_jason_reseq	-0.28	-1.289
MHCII_jason_reseq	-2.012	-1.136
Isoniazid02	0.036	-0.1
Rifampicin4	-0.39	-0.482
Ethambutol3	1.099	-0.216
Meropenem3	0.338	0.19
Vancomycin16	-0.032	0.422
Rv2680_day32	0.104	1.605
H37Rv_KO_MarP	0.669	0.0
hypoxia_3wks	-0.211	0.63
hypoxia_6wks	0.635	0.113
glycerol	0.214	0.721
cholesterol	-0.171	0.108
AJ	-0.316	0.56
Bibs02	-0.351	-1.0
Bibs02c	0.423	0.44
BL6	-0.205	1.227
BL6a	0.253	0.416
BXD01	-0.395	-0.051
BXD010	0.05	0.742
BXD011	0.189	-0.213
BXD03	-0.124	-0.053
BXD04	-0.349	0.178
BXD05	-0.325	0.239
BXD06	0.0	0.192
BXD07	-0.512	0.2
BXD08	0.141	0.963
BXD09	-0.312	0.463
CAST	-0.152	-0.385
CCcont	-0.061	1.166
DS01	-0.116	-0.621
DS02	-0.46	-0.922
DS04	-0.128	-0.156
DS0c	-0.902	0.0
GP01	-0.2	0.55
GP02	-0.407	-0.353
GP0c	-0.395	0.097
NOD	-0.129	-1.715
NZO	-0.29	0.657
PWK	0.016	-1.073
H37Rv_KO_CtpC	0.076	0.288
H37Rv_KO_CtpD	-1.329	-0.612
H37Rv_KO_Rv1272	0.384	0.424
H37Rv_KO_SugABC	-1.945	0.208
H37Rv_KO_MbtN	1.325	0.946
Trans05	0.638	1.991
macrophage_unactivated	-0.657	0.511
IL1	0.638	-0.104
Rapamycin	0.089	0.104
Tcell	-0.534	-0.114
GMCSF	0.319	-0.38
IFNab	0.057	0.302
IFNg	-0.708	-0.703
IFNg_GMCSF1	0.434	0.314
Rv1432_day32	-0.897	-0.368
Rv1565c_day32	0.27	-0.415
secA2_input	1.767	0.0
delta_Rv3594	0.159	0.389
delta_Rv3717	-0.223	0.135
delta_Rv3811	-0.431	0.0
delta_Rv0954	0.134	1.022
PonA1	1.12	0.675
EccD1_KO	1.105	0.0
EspI_KO	1.184	1.275
PE35_KO	1.488	1.21
PPE68_KO	1.533	1.632
glycerol2	0.046	0.392
lignocerate	0.432	0.91
oleate	-0.173	-0.403
phosphatidylcholine	0.158	0.332
acetate	0.409	1.531
glucAc	0.497	1.186
Rv0950ko	0.13	-0.691
Rv1096ko	0.467	1.022
Rv3684ko	-0.694	0.269
delta_otsA_trehalose	-0.391	0.062