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 Rv0755A/-

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

	Rv0830/-	Rv0755A/-
Fe_supp_jason_reseq	0.148	-0.003
low_pH_jason_reseq	-0.279	-1.183
NO_jason_reseq	0.357	0.641
B6_jason_reseq	0.739	-0.037
MHCII_jason_reseq	0.519	0.719
Isoniazid02	-1.003	-0.234
Rifampicin4	0.417	-0.287
Ethambutol3	0.027	0.878
Meropenem3	-0.343	0.081
Vancomycin16	-0.223	0.13
Rv2680_day32	0.08	0.433
H37Rv_KO_MarP	0.042	0.285
hypoxia_3wks	-0.435	0.008
hypoxia_6wks	-0.159	-0.132
glycerol	-0.859	-2.717
cholesterol	-0.552	-1.446
AJ	0.481	0.069
Bibs02	0.367	0.759
Bibs02c	0.202	1.164
BL6	0.037	-0.146
BL6a	0.141	0.946
BXD01	0.167	0.308
BXD010	-0.117	0.189
BXD011	-0.097	0.529
BXD03	-0.453	0.461
BXD04	-0.127	0.334
BXD05	0.288	0.646
BXD06	-0.154	0.275
BXD07	-0.126	0.168
BXD08	0.018	0.405
BXD09	-0.004	0.479
CAST	0.21	0.242
CCcont	-0.295	-0.236
DS01	-0.258	0.216
DS02	0.274	0.318
DS04	-0.103	0.259
DS0c	0.204	0.779
GP01	0.444	-0.621
GP02	1.298	0.938
GP0c	-0.138	0.059
NOD	0.205	0.882
NZO	0.285	0.513
PWK	0.459	-0.162
H37Rv_KO_CtpC	0.477	0.494
H37Rv_KO_CtpD	0.225	0.847
H37Rv_KO_Rv1272	0.56	0.686
H37Rv_KO_SugABC	0.499	0.306
H37Rv_KO_MbtN	-0.078	0.801
Trans05	0.684	0.751
macrophage_unactivated	0.237	-0.477
IL1	-0.564	0.044
Rapamycin	-0.292	0.175
Tcell	0.274	-0.062
GMCSF	0.185	0.034
IFNab	-0.19	-0.532
IFNg	-0.211	-0.011
IFNg_GMCSF1	-0.066	-0.735
Rv1432_day32	0.023	-0.246
Rv1565c_day32	0.242	0.602
secA2_input	-0.204	-0.836
delta_Rv3594	-0.341	-0.081
delta_Rv3717	-0.507	-0.472
delta_Rv3811	-0.656	-0.17
delta_Rv0954	-0.682	0.036
PonA1	-0.446	-0.018
EccD1_KO	0.967	0.036
EspI_KO	0.034	-0.471
PE35_KO	-0.067	-0.543
PPE68_KO	0.643	0.23
glycerol2	0.409	0.773
lignocerate	0.269	0.968
oleate	0.668	0.78
phosphatidylcholine	0.655	1.234
acetate	-0.136	-0.09
glucAc	-0.005	-0.181
Rv0950ko	0.28	0.413
Rv1096ko	-0.401	-0.808
Rv3684ko	-0.229	-1.005
delta_otsA_trehalose	0.579	0.236