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 Rv0992c/-

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

	Rv0585c/-	Rv0992c/-
Fe_supp_jason_reseq	-0.751	-1.759
low_pH_jason_reseq	-0.564	-0.81
NO_jason_reseq	0.268	0.751
B6_jason_reseq	-0.6	0.641
MHCII_jason_reseq	0.361	0.115
Isoniazid02	0.242	-0.071
Rifampicin4	0.187	0.774
Ethambutol3	-0.044	0.039
Meropenem3	1.24	3.544
Vancomycin16	0.183	0.409
Rv2680_day32	-0.345	-0.321
H37Rv_KO_MarP	0.501	-0.416
hypoxia_3wks	0.307	-1.806
hypoxia_6wks	0.033	-2.059
glycerol	0.157	1.052
cholesterol	0.431	0.916
AJ	0.461	-0.185
Bibs02	0.576	0.672
Bibs02c	0.117	0.045
BL6	0.496	0.097
BL6a	0.43	-0.453
BXD01	-0.338	-0.987
BXD010	0.179	-1.362
BXD011	-0.03	-0.881
BXD03	0.216	-0.798
BXD04	-0.073	-1.534
BXD05	0.524	0.281
BXD06	0.045	-1.064
BXD07	0.207	-0.978
BXD08	0.045	-1.336
BXD09	0.196	-1.199
CAST	0.128	0.075
CCcont	-0.366	-1.166
DS01	0.936	0.946
DS02	0.775	0.581
DS04	0.252	0.44
DS0c	0.79	0.635
GP01	0.0	0.525
GP02	-0.612	-0.612
GP0c	0.194	-0.009
NOD	-0.216	-0.242
NZO	-0.094	0.155
PWK	0.48	0.828
H37Rv_KO_CtpC	0.16	2.265
H37Rv_KO_CtpD	0.722	0.861
H37Rv_KO_Rv1272	1.153	0.488
H37Rv_KO_SugABC	-0.272	-0.862
H37Rv_KO_MbtN	0.567	0.402
Trans05	0.344	0.435
macrophage_unactivated	-0.076	-1.177
IL1	0.368	-0.291
Rapamycin	0.175	-0.973
Tcell	-0.567	0.042
GMCSF	-0.095	-0.499
IFNab	-0.181	-0.84
IFNg	0.094	-0.869
IFNg_GMCSF1	0.39	-0.874
Rv1432_day32	0.456	1.463
Rv1565c_day32	0.6	0.667
secA2_input	0.277	0.214
delta_Rv3594	-0.289	-0.514
delta_Rv3717	0.424	0.311
delta_Rv3811	0.18	0.281
delta_Rv0954	0.382	-0.36
PonA1	0.779	0.115
EccD1_KO	0.0	0.204
EspI_KO	0.502	0.742
PE35_KO	-0.254	-0.073
PPE68_KO	0.0	0.243
glycerol2	-0.446	-1.739
lignocerate	-0.021	0.251
oleate	-0.51	-0.615
phosphatidylcholine	-0.146	-0.315
acetate	-0.392	0.362
glucAc	0.627	0.785
Rv0950ko	-0.063	0.078
Rv1096ko	1.526	0.998
Rv3684ko	0.639	1.51
delta_otsA_trehalose	-0.222	0.366