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 Rv1552/frdA:

update plot	correlation	link to info on gene
Rv1490/-	(cc=0.5088)	info on Rv1490/-
Rv1800/PPE28	(cc=0.5017)	info on Rv1800/PPE28
Rv2435c/-	(cc=0.4911)	info on Rv2435c/-
Rv1962A/vapB35	(cc=0.487)	info on Rv1962A/vapB35
Rv1582c/-	(cc=0.4687)	info on Rv1582c/-
Rv1324/-	(cc=0.4686)	info on Rv1324/-
Rv3588c/canB	(cc=0.4661)	info on Rv3588c/canB
Rv3902c/-	(cc=0.4652)	info on Rv3902c/-
Rv3410c/guaB3	(cc=0.4641)	info on Rv3410c/guaB3
Rv1944c/-	(cc=0.4636)	info on Rv1944c/-

Correlation of Rv1552/frdA with Rv2435c/-

Normalized LFCs for Rv1552/frdA:
(description and provenance of datasets)

	Rv1552/frdA	Rv2435c/-
Fe_supp_jason_reseq	-0.283	-0.523
low_pH_jason_reseq	0.679	0.371
NO_jason_reseq	0.097	-0.357
B6_jason_reseq	-0.246	-0.421
MHCII_jason_reseq	-0.375	0.088
Isoniazid02	1.394	0.901
Rifampicin4	0.057	0.07
Ethambutol3	1.083	-0.063
Meropenem3	-0.103	0.284
Vancomycin16	0.162	0.512
Rv2680_day32	0.071	-0.527
H37Rv_KO_MarP	0.275	0.035
hypoxia_3wks	0.638	0.355
hypoxia_6wks	0.255	0.217
glycerol	0.0	-0.66
cholesterol	0.219	-0.142
AJ	1.106	0.795
Bibs02	0.474	0.111
Bibs02c	0.196	0.095
BL6	0.225	-0.235
BL6a	0.244	0.06
BXD01	0.252	0.518
BXD010	0.379	0.058
BXD011	0.229	0.719
BXD03	-0.349	0.233
BXD04	-0.345	0.98
BXD05	0.106	0.446
BXD06	-0.067	0.457
BXD07	0.526	0.202
BXD08	0.239	0.47
BXD09	0.252	0.645
CAST	0.0	0.486
CCcont	0.048	-0.457
DS01	-0.2	0.212
DS02	-0.852	-0.25
DS04	-0.032	-0.634
DS0c	-0.427	-0.035
GP01	0.577	0.13
GP02	0.216	0.339
GP0c	0.369	0.04
NOD	1.185	0.233
NZO	0.889	0.471
PWK	0.405	0.512
H37Rv_KO_CtpC	0.824	0.917
H37Rv_KO_CtpD	1.188	0.715
H37Rv_KO_Rv1272	1.044	1.096
H37Rv_KO_SugABC	0.293	0.404
H37Rv_KO_MbtN	0.491	0.364
Trans05	0.701	0.947
macrophage_unactivated	0.268	0.584
IL1	0.605	0.0
Rapamycin	0.196	-0.654
Tcell	0.538	-0.065
GMCSF	-0.058	0.053
IFNab	-0.417	0.175
IFNg	-0.305	-0.388
IFNg_GMCSF1	0.267	-0.063
Rv1432_day32	0.121	0.386
Rv1565c_day32	0.065	0.308
secA2_input	-0.269	-1.39
delta_Rv3594	0.358	0.451
delta_Rv3717	-0.138	0.028
delta_Rv3811	0.402	0.518
delta_Rv0954	0.326	-0.209
PonA1	-0.353	-0.335
EccD1_KO	0.122	-0.138
EspI_KO	0.787	-0.12
PE35_KO	0.939	0.726
PPE68_KO	1.078	1.017
glycerol2	0.0	-0.369
lignocerate	-0.069	-0.776
oleate	0.2	0.201
phosphatidylcholine	0.126	-0.032
acetate	0.03	-0.652
glucAc	0.128	-1.378
Rv0950ko	-0.326	0.145
Rv1096ko	-0.73	-0.151
Rv3684ko	-1.343	-0.511
delta_otsA_trehalose	0.031	0.591