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 Rv0585c/-:

update plot	correlation	link to info on gene
Rv0992c/-	(cc=0.535)	info on Rv0992c/-
Rv0578c/PE_PGRS7	(cc=0.4363)	info on Rv0578c/PE_PGRS7
Rv0039c/-	(cc=0.4173)	info on Rv0039c/-
Rv2012/-	(cc=0.4104)	info on Rv2012/-
Rv0435c/-	(cc=0.4043)	info on Rv0435c/-
Rv2495c/bkdC	(cc=0.3948)	info on Rv2495c/bkdC
Rv0409/ackA	(cc=0.3946)	info on Rv0409/ackA
Rv0418/lpqL	(cc=0.3904)	info on Rv0418/lpqL
Rv2963/-	(cc=0.3903)	info on Rv2963/-
Rv0376c/-	(cc=0.379)	info on Rv0376c/-

Correlation of Rv0585c/- with Rv2495c/bkdC

Normalized LFCs for Rv0585c/-:
(description and provenance of datasets)

	Rv0585c/-	Rv2495c/bkdC
Fe_supp_jason_reseq	-0.751	-5.05
low_pH_jason_reseq	-0.564	-5.352
NO_jason_reseq	0.268	0.252
B6_jason_reseq	-0.6	-2.921
MHCII_jason_reseq	0.361	-2.608
Isoniazid02	0.242	0.333
Rifampicin4	0.187	-1.652
Ethambutol3	-0.044	-0.332
Meropenem3	1.24	-0.061
Vancomycin16	0.183	0.0
Rv2680_day32	-0.345	-0.168
H37Rv_KO_MarP	0.501	0.769
hypoxia_3wks	0.307	0.263
hypoxia_6wks	0.033	0.069
glycerol	0.157	-0.628
cholesterol	0.431	0.684
AJ	0.461	-0.914
Bibs02	0.576	-1.495
Bibs02c	0.117	0.735
BL6	0.496	-0.869
BL6a	0.43	0.973
BXD01	-0.338	0.0
BXD010	0.179	-0.622
BXD011	-0.03	0.448
BXD03	0.216	1.318
BXD04	-0.073	0.78
BXD05	0.524	0.078
BXD06	0.045	0.441
BXD07	0.207	-0.375
BXD08	0.045	0.702
BXD09	0.196	0.232
CAST	0.128	-0.537
CCcont	-0.366	-0.797
DS01	0.936	0.204
DS02	0.775	0.52
DS04	0.252	1.159
DS0c	0.79	1.538
GP01	0.0	0.085
GP02	-0.612	-0.797
GP0c	0.194	-0.903
NOD	-0.216	-0.986
NZO	-0.094	-0.186
PWK	0.48	0.222
H37Rv_KO_CtpC	0.16	0.5
H37Rv_KO_CtpD	0.722	0.333
H37Rv_KO_Rv1272	1.153	0.434
H37Rv_KO_SugABC	-0.272	-0.877
H37Rv_KO_MbtN	0.567	-0.32
Trans05	0.344	1.474
macrophage_unactivated	-0.076	0.994
IL1	0.368	1.258
Rapamycin	0.175	0.697
Tcell	-0.567	0.74
GMCSF	-0.095	-0.19
IFNab	-0.181	-0.109
IFNg	0.094	0.358
IFNg_GMCSF1	0.39	0.217
Rv1432_day32	0.456	0.0
Rv1565c_day32	0.6	-0.395
secA2_input	0.277	-0.611
delta_Rv3594	-0.289	-0.561
delta_Rv3717	0.424	-0.076
delta_Rv3811	0.18	-0.546
delta_Rv0954	0.382	-0.078
PonA1	0.779	-0.874
EccD1_KO	0.0	-0.898
EspI_KO	0.502	-1.962
PE35_KO	-0.254	-0.709
PPE68_KO	0.0	-0.246
glycerol2	-0.446	-0.68
lignocerate	-0.021	-0.591
oleate	-0.51	0.142
phosphatidylcholine	-0.146	-0.398
acetate	-0.392	-1.197
glucAc	0.627	-1.535
Rv0950ko	-0.063	0.754
Rv1096ko	1.526	1.221
Rv3684ko	0.639	1.608
delta_otsA_trehalose	-0.222	-1.661