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 Rv1128c/-

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

	Rv0576/-	Rv1128c/-
Fe_supp_jason_reseq	-0.308	1.403
low_pH_jason_reseq	-0.475	0.254
NO_jason_reseq	-0.205	-1.137
B6_jason_reseq	-1.345	-0.403
MHCII_jason_reseq	-0.823	-0.355
Isoniazid02	0.422	0.175
Rifampicin4	-0.292	0.325
Ethambutol3	0.311	0.074
Meropenem3	-0.374	0.4
Vancomycin16	0.082	0.753
Rv2680_day32	0.725	0.715
H37Rv_KO_MarP	0.529	0.467
hypoxia_3wks	0.06	0.371
hypoxia_6wks	0.319	0.0
glycerol	-1.257	-0.168
cholesterol	0.345	-0.475
AJ	-0.062	0.578
Bibs02	0.494	-0.234
Bibs02c	-0.611	-0.805
BL6	-0.841	0.312
BL6a	0.319	0.364
BXD01	0.926	0.994
BXD010	0.953	0.435
BXD011	0.639	0.396
BXD03	-0.279	0.053
BXD04	0.42	1.334
BXD05	1.16	0.675
BXD06	1.095	0.566
BXD07	-0.037	1.608
BXD08	1.008	1.091
BXD09	0.57	0.838
CAST	-0.26	-0.192
CCcont	0.223	0.592
DS01	-0.267	0.589
DS02	-0.878	-0.279
DS04	1.067	0.659
DS0c	-0.379	0.0
GP01	0.511	0.961
GP02	2.078	0.064
GP0c	1.018	1.224
NOD	0.06	-0.093
NZO	0.104	0.433
PWK	-0.193	0.489
H37Rv_KO_CtpC	0.405	1.005
H37Rv_KO_CtpD	0.656	1.504
H37Rv_KO_Rv1272	0.585	1.373
H37Rv_KO_SugABC	-0.99	-0.127
H37Rv_KO_MbtN	0.013	0.936
Trans05	0.068	1.784
macrophage_unactivated	0.388	2.235
IL1	0.86	0.658
Rapamycin	1.2	2.081
Tcell	1.03	1.235
GMCSF	-0.084	1.869
IFNab	0.327	1.769
IFNg	0.329	0.911
IFNg_GMCSF1	0.198	0.952
Rv1432_day32	0.721	-0.439
Rv1565c_day32	0.305	-0.196
secA2_input	-0.504	0.839
delta_Rv3594	0.919	0.867
delta_Rv3717	-0.263	-0.068
delta_Rv3811	-0.81	0.226
delta_Rv0954	0.102	-0.655
PonA1	0.126	-0.34
EccD1_KO	-0.444	-0.753
EspI_KO	-0.208	-0.248
PE35_KO	0.283	-0.388
PPE68_KO	-0.234	-0.278
glycerol2	-1.138	-0.053
lignocerate	-1.622	-0.095
oleate	-0.322	0.052
phosphatidylcholine	-0.958	-0.053
acetate	-1.012	-0.607
glucAc	-0.486	-1.073
Rv0950ko	0.09	-0.546
Rv1096ko	0.709	0.814
Rv3684ko	0.77	0.648
delta_otsA_trehalose	-2.117	-0.965