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 Rv0576/-:

update plot	correlation	link to info on gene
Rv2695/-	(cc=0.5209)	info on Rv2695/-
Rv3847/-	(cc=0.5112)	info on Rv3847/-
Rv3050c/-	(cc=0.498)	info on Rv3050c/-
Rv1752/-	(cc=0.4943)	info on Rv1752/-
Rv3521/-	(cc=0.4913)	info on Rv3521/-
Rv0222/echA1	(cc=0.4889)	info on Rv0222/echA1
Rv2857c/-	(cc=0.4882)	info on Rv2857c/-
Rv3398c/idsA1	(cc=0.488)	info on Rv3398c/idsA1
Rv0647c/-	(cc=0.4856)	info on Rv0647c/-
Rv1128c/-	(cc=0.4766)	info on Rv1128c/-

Correlation of Rv0576/- with Rv3521/-

Normalized LFCs for Rv0576/-:
(description and provenance of datasets)

	Rv0576/-	Rv3521/-
Fe_supp_jason_reseq	-0.308	-0.287
low_pH_jason_reseq	-0.475	-0.927
NO_jason_reseq	-0.205	0.339
B6_jason_reseq	-1.345	-0.667
MHCII_jason_reseq	-0.823	-0.091
Isoniazid02	0.422	-0.22
Rifampicin4	-0.292	0.309
Ethambutol3	0.311	0.666
Meropenem3	-0.374	-0.187
Vancomycin16	0.082	1.059
Rv2680_day32	0.725	-0.058
H37Rv_KO_MarP	0.529	0.524
hypoxia_3wks	0.06	0.231
hypoxia_6wks	0.319	-0.025
glycerol	-1.257	0.159
cholesterol	0.345	-0.219
AJ	-0.062	0.578
Bibs02	0.494	0.241
Bibs02c	-0.611	-0.147
BL6	-0.841	0.325
BL6a	0.319	0.044
BXD01	0.926	0.424
BXD010	0.953	0.455
BXD011	0.639	0.736
BXD03	-0.279	0.672
BXD04	0.42	0.272
BXD05	1.16	0.415
BXD06	1.095	0.342
BXD07	-0.037	0.232
BXD08	1.008	1.005
BXD09	0.57	0.163
CAST	-0.26	0.142
CCcont	0.223	-0.257
DS01	-0.267	0.156
DS02	-0.878	0.566
DS04	1.067	0.804
DS0c	-0.379	0.64
GP01	0.511	-0.032
GP02	2.078	0.832
GP0c	1.018	0.296
NOD	0.06	0.26
NZO	0.104	0.623
PWK	-0.193	0.179
H37Rv_KO_CtpC	0.405	0.155
H37Rv_KO_CtpD	0.656	0.765
H37Rv_KO_Rv1272	0.585	1.102
H37Rv_KO_SugABC	-0.99	0.614
H37Rv_KO_MbtN	0.013	-0.252
Trans05	0.068	0.759
macrophage_unactivated	0.388	-0.331
IL1	0.86	0.561
Rapamycin	1.2	0.684
Tcell	1.03	0.283
GMCSF	-0.084	0.354
IFNab	0.327	0.166
IFNg	0.329	0.045
IFNg_GMCSF1	0.198	0.421
Rv1432_day32	0.721	-0.005
Rv1565c_day32	0.305	0.172
secA2_input	-0.504	-0.041
delta_Rv3594	0.919	0.194
delta_Rv3717	-0.263	0.167
delta_Rv3811	-0.81	0.106
delta_Rv0954	0.102	0.513
PonA1	0.126	0.16
EccD1_KO	-0.444	0.234
EspI_KO	-0.208	0.054
PE35_KO	0.283	-0.146
PPE68_KO	-0.234	-0.048
glycerol2	-1.138	-0.149
lignocerate	-1.622	-0.223
oleate	-0.322	0.103
phosphatidylcholine	-0.958	0.207
acetate	-1.012	-0.69
glucAc	-0.486	-0.429
Rv0950ko	0.09	0.32
Rv1096ko	0.709	0.365
Rv3684ko	0.77	0.763
delta_otsA_trehalose	-2.117	-0.673