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 Rv0830/-:

update plot	correlation	link to info on gene
Rv3109/moaA1	(cc=0.5729)	info on Rv3109/moaA1
Rv1087A/-	(cc=0.5419)	info on Rv1087A/-
Rv3738c/PPE66	(cc=0.5249)	info on Rv3738c/PPE66
Rv2267c/-	(cc=0.5247)	info on Rv2267c/-
Rv0755A/-	(cc=0.5195)	info on Rv0755A/-
Rv2424c/-	(cc=0.5054)	info on Rv2424c/-
Rv2958c/-	(cc=0.4928)	info on Rv2958c/-
Rv2092c/helY	(cc=0.4855)	info on Rv2092c/helY
Rv2957/-	(cc=0.4806)	info on Rv2957/-
Rv1916/aceAb	(cc=0.4798)	info on Rv1916/aceAb

Correlation of Rv0830/- with Rv2267c/-

Normalized LFCs for Rv0830/-:
(description and provenance of datasets)

	Rv0830/-	Rv2267c/-
Fe_supp_jason_reseq	0.148	0.944
low_pH_jason_reseq	-0.279	-0.761
NO_jason_reseq	0.357	-0.669
B6_jason_reseq	0.739	0.747
MHCII_jason_reseq	0.519	0.244
Isoniazid02	-1.003	-0.477
Rifampicin4	0.417	-0.596
Ethambutol3	0.027	-0.232
Meropenem3	-0.343	-0.337
Vancomycin16	-0.223	-0.467
Rv2680_day32	0.08	-0.567
H37Rv_KO_MarP	0.042	-0.371
hypoxia_3wks	-0.435	-0.199
hypoxia_6wks	-0.159	-0.294
glycerol	-0.859	-1.192
cholesterol	-0.552	-0.378
AJ	0.481	0.958
Bibs02	0.367	0.494
Bibs02c	0.202	0.3
BL6	0.037	0.305
BL6a	0.141	0.743
BXD01	0.167	0.362
BXD010	-0.117	0.49
BXD011	-0.097	0.599
BXD03	-0.453	0.701
BXD04	-0.127	0.375
BXD05	0.288	1.068
BXD06	-0.154	0.656
BXD07	-0.126	0.213
BXD08	0.018	0.519
BXD09	-0.004	0.438
CAST	0.21	0.774
CCcont	-0.295	0.08
DS01	-0.258	0.026
DS02	0.274	0.435
DS04	-0.103	0.758
DS0c	0.204	0.567
GP01	0.444	-0.165
GP02	1.298	-0.096
GP0c	-0.138	-0.168
NOD	0.205	0.28
NZO	0.285	0.867
PWK	0.459	2.141
H37Rv_KO_CtpC	0.477	1.123
H37Rv_KO_CtpD	0.225	0.973
H37Rv_KO_Rv1272	0.56	1.409
H37Rv_KO_SugABC	0.499	0.701
H37Rv_KO_MbtN	-0.078	-0.07
Trans05	0.684	1.431
macrophage_unactivated	0.237	0.155
IL1	-0.564	-1.097
Rapamycin	-0.292	-0.04
Tcell	0.274	-0.042
GMCSF	0.185	-0.275
IFNab	-0.19	-0.357
IFNg	-0.211	-0.035
IFNg_GMCSF1	-0.066	-0.82
Rv1432_day32	0.023	0.022
Rv1565c_day32	0.242	-0.355
secA2_input	-0.204	-1.988
delta_Rv3594	-0.341	0.078
delta_Rv3717	-0.507	-0.527
delta_Rv3811	-0.656	-0.842
delta_Rv0954	-0.682	-0.682
PonA1	-0.446	-0.405
EccD1_KO	0.967	0.654
EspI_KO	0.034	1.064
PE35_KO	-0.067	1.61
PPE68_KO	0.643	1.907
glycerol2	0.409	-0.168
lignocerate	0.269	0.226
oleate	0.668	0.197
phosphatidylcholine	0.655	0.336
acetate	-0.136	-0.276
glucAc	-0.005	0.115
Rv0950ko	0.28	-0.329
Rv1096ko	-0.401	-0.299
Rv3684ko	-0.229	-0.93
delta_otsA_trehalose	0.579	1.986