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 Rv3382c/lytB1

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

	Rv2320c/rocE	Rv3382c/lytB1
Fe_supp_jason_reseq	-0.251	-0.537
low_pH_jason_reseq	-0.908	-0.453
NO_jason_reseq	-0.48	-0.129
B6_jason_reseq	-0.231	-0.782
MHCII_jason_reseq	-0.011	-0.265
Isoniazid02	0.048	0.4
Rifampicin4	0.089	-0.027
Ethambutol3	-0.04	0.499
Meropenem3	-0.081	1.751
Vancomycin16	0.255	0.501
Rv2680_day32	-2.734	-2.159
H37Rv_KO_MarP	-0.1	-0.384
hypoxia_3wks	0.459	0.128
hypoxia_6wks	0.263	-0.47
glycerol	-0.016	0.531
cholesterol	0.185	0.472
AJ	0.486	0.126
Bibs02	-0.09	1.02
Bibs02c	0.326	1.322
BL6	-0.159	0.745
BL6a	0.748	1.578
BXD01	0.129	0.16
BXD010	-0.118	0.693
BXD011	0.386	1.176
BXD03	0.172	1.089
BXD04	0.722	0.461
BXD05	0.254	1.409
BXD06	0.412	0.929
BXD07	0.427	0.809
BXD08	-0.169	0.705
BXD09	0.209	0.93
CAST	0.711	0.719
CCcont	-0.453	0.315
DS01	0.368	0.291
DS02	-0.238	0.507
DS04	-0.548	-0.271
DS0c	0.245	0.707
GP01	-0.589	-0.347
GP02	-0.636	0.885
GP0c	-0.758	-0.012
NOD	-0.036	1.061
NZO	0.24	0.0
PWK	0.136	0.159
H37Rv_KO_CtpC	0.088	0.595
H37Rv_KO_CtpD	0.745	2.104
H37Rv_KO_Rv1272	-0.521	0.912
H37Rv_KO_SugABC	0.956	0.798
H37Rv_KO_MbtN	-0.095	1.1
Trans05	0.176	1.041
macrophage_unactivated	0.211	0.17
IL1	0.086	0.089
Rapamycin	0.058	0.798
Tcell	0.094	-0.244
GMCSF	0.227	0.422
IFNab	0.342	0.599
IFNg	0.446	0.893
IFNg_GMCSF1	-0.031	-0.632
Rv1432_day32	1.351	-0.155
Rv1565c_day32	0.734	0.785
secA2_input	-1.338	-1.34
delta_Rv3594	0.324	-0.396
delta_Rv3717	-0.54	-1.029
delta_Rv3811	-0.37	-0.442
delta_Rv0954	-0.389	-0.384
PonA1	-0.388	-0.81
EccD1_KO	0.191	-1.033
EspI_KO	-0.448	-0.394
PE35_KO	0.753	-0.324
PPE68_KO	0.278	-0.646
glycerol2	-0.621	-0.671
lignocerate	-0.33	-0.872
oleate	-0.35	0.699
phosphatidylcholine	-0.328	-0.581
acetate	-0.389	-0.04
glucAc	-0.762	-1.299
Rv0950ko	0.229	0.54
Rv1096ko	0.401	-0.042
Rv3684ko	0.793	-0.285
delta_otsA_trehalose	0.031	0.068