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 Rv2320c/rocE:

update plot	correlation	link to info on gene
Rv3382c/lytB1	(cc=0.5257)	info on Rv3382c/lytB1
Rv1358/-	(cc=0.4733)	info on Rv1358/-
Rv2435c/-	(cc=0.4652)	info on Rv2435c/-
Rv0388c/PPE9	(cc=0.4547)	info on Rv0388c/PPE9
Rv0766c/cyp123	(cc=0.4438)	info on Rv0766c/cyp123
Rv1000c/-	(cc=0.4385)	info on Rv1000c/-
Rv3690/-	(cc=0.4349)	info on Rv3690/-
Rv2998/-	(cc=0.4314)	info on Rv2998/-
Rv2310/-	(cc=0.4196)	info on Rv2310/-
Rv0300/vapB2	(cc=0.4081)	info on Rv0300/vapB2

Correlation of Rv2320c/rocE with Rv2435c/-

Normalized LFCs for Rv2320c/rocE:
(description and provenance of datasets)

	Rv2320c/rocE	Rv2435c/-
Fe_supp_jason_reseq	-0.251	-0.523
low_pH_jason_reseq	-0.908	0.371
NO_jason_reseq	-0.48	-0.357
B6_jason_reseq	-0.231	-0.421
MHCII_jason_reseq	-0.011	0.088
Isoniazid02	0.048	0.901
Rifampicin4	0.089	0.07
Ethambutol3	-0.04	-0.063
Meropenem3	-0.081	0.284
Vancomycin16	0.255	0.512
Rv2680_day32	-2.734	-0.527
H37Rv_KO_MarP	-0.1	0.035
hypoxia_3wks	0.459	0.355
hypoxia_6wks	0.263	0.217
glycerol	-0.016	-0.66
cholesterol	0.185	-0.142
AJ	0.486	0.795
Bibs02	-0.09	0.111
Bibs02c	0.326	0.095
BL6	-0.159	-0.235
BL6a	0.748	0.06
BXD01	0.129	0.518
BXD010	-0.118	0.058
BXD011	0.386	0.719
BXD03	0.172	0.233
BXD04	0.722	0.98
BXD05	0.254	0.446
BXD06	0.412	0.457
BXD07	0.427	0.202
BXD08	-0.169	0.47
BXD09	0.209	0.645
CAST	0.711	0.486
CCcont	-0.453	-0.457
DS01	0.368	0.212
DS02	-0.238	-0.25
DS04	-0.548	-0.634
DS0c	0.245	-0.035
GP01	-0.589	0.13
GP02	-0.636	0.339
GP0c	-0.758	0.04
NOD	-0.036	0.233
NZO	0.24	0.471
PWK	0.136	0.512
H37Rv_KO_CtpC	0.088	0.917
H37Rv_KO_CtpD	0.745	0.715
H37Rv_KO_Rv1272	-0.521	1.096
H37Rv_KO_SugABC	0.956	0.404
H37Rv_KO_MbtN	-0.095	0.364
Trans05	0.176	0.947
macrophage_unactivated	0.211	0.584
IL1	0.086	0.0
Rapamycin	0.058	-0.654
Tcell	0.094	-0.065
GMCSF	0.227	0.053
IFNab	0.342	0.175
IFNg	0.446	-0.388
IFNg_GMCSF1	-0.031	-0.063
Rv1432_day32	1.351	0.386
Rv1565c_day32	0.734	0.308
secA2_input	-1.338	-1.39
delta_Rv3594	0.324	0.451
delta_Rv3717	-0.54	0.028
delta_Rv3811	-0.37	0.518
delta_Rv0954	-0.389	-0.209
PonA1	-0.388	-0.335
EccD1_KO	0.191	-0.138
EspI_KO	-0.448	-0.12
PE35_KO	0.753	0.726
PPE68_KO	0.278	1.017
glycerol2	-0.621	-0.369
lignocerate	-0.33	-0.776
oleate	-0.35	0.201
phosphatidylcholine	-0.328	-0.032
acetate	-0.389	-0.652
glucAc	-0.762	-1.378
Rv0950ko	0.229	0.145
Rv1096ko	0.401	-0.151
Rv3684ko	0.793	-0.511
delta_otsA_trehalose	0.031	0.591