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 Rv0388c/PPE9

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

	Rv2320c/rocE	Rv0388c/PPE9
Fe_supp_jason_reseq	-0.251	-0.923
low_pH_jason_reseq	-0.908	-0.979
NO_jason_reseq	-0.48	-0.486
B6_jason_reseq	-0.231	-0.156
MHCII_jason_reseq	-0.011	-0.299
Isoniazid02	0.048	0.02
Rifampicin4	0.089	0.717
Ethambutol3	-0.04	-0.086
Meropenem3	-0.081	0.332
Vancomycin16	0.255	-0.151
Rv2680_day32	-2.734	-2.472
H37Rv_KO_MarP	-0.1	-0.072
hypoxia_3wks	0.459	-0.355
hypoxia_6wks	0.263	-0.679
glycerol	-0.016	-0.762
cholesterol	0.185	0.03
AJ	0.486	1.055
Bibs02	-0.09	0.918
Bibs02c	0.326	0.694
BL6	-0.159	-0.721
BL6a	0.748	0.0
BXD01	0.129	0.704
BXD010	-0.118	0.385
BXD011	0.386	0.982
BXD03	0.172	0.083
BXD04	0.722	-0.026
BXD05	0.254	0.902
BXD06	0.412	-0.133
BXD07	0.427	0.279
BXD08	-0.169	0.41
BXD09	0.209	0.233
CAST	0.711	0.711
CCcont	-0.453	-0.167
DS01	0.368	1.009
DS02	-0.238	1.457
DS04	-0.548	1.279
DS0c	0.245	0.896
GP01	-0.589	-0.466
GP02	-0.636	-1.01
GP0c	-0.758	-1.716
NOD	-0.036	2.372
NZO	0.24	0.961
PWK	0.136	0.307
H37Rv_KO_CtpC	0.088	1.467
H37Rv_KO_CtpD	0.745	-0.171
H37Rv_KO_Rv1272	-0.521	0.905
H37Rv_KO_SugABC	0.956	1.027
H37Rv_KO_MbtN	-0.095	0.557
Trans05	0.176	0.762
macrophage_unactivated	0.211	0.527
IL1	0.086	2.002
Rapamycin	0.058	1.82
Tcell	0.094	0.691
GMCSF	0.227	1.196
IFNab	0.342	1.611
IFNg	0.446	0.505
IFNg_GMCSF1	-0.031	0.996
Rv1432_day32	1.351	0.343
Rv1565c_day32	0.734	0.0
secA2_input	-1.338	0.28
delta_Rv3594	0.324	-1.077
delta_Rv3717	-0.54	-2.451
delta_Rv3811	-0.37	-1.142
delta_Rv0954	-0.389	-0.09
PonA1	-0.388	-0.77
EccD1_KO	0.191	-0.184
EspI_KO	-0.448	0.419
PE35_KO	0.753	-0.478
PPE68_KO	0.278	-0.899
glycerol2	-0.621	-1.135
lignocerate	-0.33	-0.84
oleate	-0.35	-0.133
phosphatidylcholine	-0.328	-0.535
acetate	-0.389	-0.306
glucAc	-0.762	-1.076
Rv0950ko	0.229	0.639
Rv1096ko	0.401	0.73
Rv3684ko	0.793	0.891
delta_otsA_trehalose	0.031	-0.356