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 Rv2269c/-:

update plot	correlation	link to info on gene
Rv2884/-	(cc=0.4365)	info on Rv2884/-
Rv2436/rbsK	(cc=0.409)	info on Rv2436/rbsK
Rv2674/msrB	(cc=0.4039)	info on Rv2674/msrB
Rv1615/-	(cc=0.396)	info on Rv1615/-
Rv2810c/-	(cc=0.3942)	info on Rv2810c/-
Rv2274A/mazE8	(cc=0.3838)	info on Rv2274A/mazE8
Rv0798c/cfp29	(cc=0.3705)	info on Rv0798c/cfp29
Rv2840c/-	(cc=0.3691)	info on Rv2840c/-
Rv1574/-	(cc=0.3683)	info on Rv1574/-
Rv1598c/-	(cc=0.3604)	info on Rv1598c/-

Correlation of Rv2269c/- with Rv2436/rbsK

Normalized LFCs for Rv2269c/-:
(description and provenance of datasets)

	Rv2269c/-	Rv2436/rbsK
Fe_supp_jason_reseq	-0.999	0.458
low_pH_jason_reseq	0.766	0.636
NO_jason_reseq	-0.373	0.344
B6_jason_reseq	-0.527	-0.727
MHCII_jason_reseq	-0.244	-1.484
Isoniazid02	0.038	-0.838
Rifampicin4	1.194	0.72
Ethambutol3	-0.308	-1.026
Meropenem3	0.09	-0.564
Vancomycin16	0.326	-0.745
Rv2680_day32	1.417	1.263
H37Rv_KO_MarP	0.116	0.095
hypoxia_3wks	0.63	0.0
hypoxia_6wks	-1.109	-1.723
glycerol	1.2	-0.394
cholesterol	0.55	0.897
AJ	-0.156	0.425
Bibs02	0.403	0.868
Bibs02c	-0.497	1.716
BL6	0.788	-0.179
BL6a	-0.595	0.672
BXD01	0.648	0.523
BXD010	-1.06	-0.15
BXD011	-0.694	0.028
BXD03	0.645	0.321
BXD04	0.222	-0.028
BXD05	-0.697	0.247
BXD06	0.258	0.193
BXD07	0.444	0.823
BXD08	0.459	0.756
BXD09	0.111	-0.71
CAST	0.567	-0.105
CCcont	0.633	1.24
DS01	0.221	0.296
DS02	0.329	0.807
DS04	1.883	0.319
DS0c	0.448	1.948
GP01	-0.653	-1.498
GP02	-0.409	0.621
GP0c	0.686	-0.971
NOD	0.747	0.0
NZO	-0.316	-0.936
PWK	-1.124	-0.604
H37Rv_KO_CtpC	0.461	1.727
H37Rv_KO_CtpD	-1.755	1.357
H37Rv_KO_Rv1272	1.378	1.778
H37Rv_KO_SugABC	0.376	0.484
H37Rv_KO_MbtN	1.539	0.366
Trans05	2.132	2.226
macrophage_unactivated	0.439	1.521
IL1	-0.819	1.13
Rapamycin	0.249	0.322
Tcell	0.635	0.736
GMCSF	0.969	2.141
IFNab	0.245	0.955
IFNg	-0.946	0.142
IFNg_GMCSF1	1.153	0.562
Rv1432_day32	1.014	0.0
Rv1565c_day32	-0.747	0.294
secA2_input	-0.853	-1.924
delta_Rv3594	-0.477	0.525
delta_Rv3717	-1.037	-0.391
delta_Rv3811	-1.41	0.433
delta_Rv0954	-0.36	-1.914
PonA1	-0.563	-0.627
EccD1_KO	-0.069	1.388
EspI_KO	1.46	1.614
PE35_KO	0.939	1.873
PPE68_KO	1.241	1.747
glycerol2	0.675	0.96
lignocerate	0.469	0.856
oleate	0.308	0.0
phosphatidylcholine	0.648	0.696
acetate	-0.066	1.139
glucAc	-0.488	0.762
Rv0950ko	-0.573	-0.736
Rv1096ko	-0.305	-0.875
Rv3684ko	0.596	-0.187
delta_otsA_trehalose	-0.247	-2.417