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 Rv1944c/-

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

	Rv1552/frdA	Rv1944c/-
Fe_supp_jason_reseq	-0.283	-0.614
low_pH_jason_reseq	0.679	2.561
NO_jason_reseq	0.097	-0.788
B6_jason_reseq	-0.246	-0.807
MHCII_jason_reseq	-0.375	-1.64
Isoniazid02	1.394	3.462
Rifampicin4	0.057	0.173
Ethambutol3	1.083	3.199
Meropenem3	-0.103	0.097
Vancomycin16	0.162	0.17
Rv2680_day32	0.071	-0.039
H37Rv_KO_MarP	0.275	0.49
hypoxia_3wks	0.638	-0.522
hypoxia_6wks	0.255	0.0
glycerol	0.0	-0.614
cholesterol	0.219	0.946
AJ	1.106	-0.97
Bibs02	0.474	0.413
Bibs02c	0.196	-0.67
BL6	0.225	0.477
BL6a	0.244	0.044
BXD01	0.252	0.734
BXD010	0.379	0.605
BXD011	0.229	0.323
BXD03	-0.349	0.133
BXD04	-0.345	-0.627
BXD05	0.106	1.216
BXD06	-0.067	0.314
BXD07	0.526	0.549
BXD08	0.239	0.925
BXD09	0.252	0.196
CAST	0.0	0.367
CCcont	0.048	0.694
DS01	-0.2	0.282
DS02	-0.852	0.532
DS04	-0.032	0.252
DS0c	-0.427	1.279
GP01	0.577	0.843
GP02	0.216	2.041
GP0c	0.369	1.277
NOD	1.185	0.944
NZO	0.889	-0.517
PWK	0.405	1.269
H37Rv_KO_CtpC	0.824	1.205
H37Rv_KO_CtpD	1.188	0.344
H37Rv_KO_Rv1272	1.044	1.093
H37Rv_KO_SugABC	0.293	0.768
H37Rv_KO_MbtN	0.491	0.08
Trans05	0.701	-0.126
macrophage_unactivated	0.268	0.9
IL1	0.605	-0.89
Rapamycin	0.196	-0.387
Tcell	0.538	1.388
GMCSF	-0.058	-0.42
IFNab	-0.417	0.514
IFNg	-0.305	-0.249
IFNg_GMCSF1	0.267	0.273
Rv1432_day32	0.121	1.073
Rv1565c_day32	0.065	0.444
secA2_input	-0.269	0.402
delta_Rv3594	0.358	-0.26
delta_Rv3717	-0.138	0.191
delta_Rv3811	0.402	-0.327
delta_Rv0954	0.326	0.213
PonA1	-0.353	0.454
EccD1_KO	0.122	0.342
EspI_KO	0.787	0.328
PE35_KO	0.939	0.732
PPE68_KO	1.078	-0.038
glycerol2	0.0	0.548
lignocerate	-0.069	0.258
oleate	0.2	0.525
phosphatidylcholine	0.126	0.978
acetate	0.03	-0.279
glucAc	0.128	-0.194
Rv0950ko	-0.326	-1.933
Rv1096ko	-0.73	-0.799
Rv3684ko	-1.343	-2.512
delta_otsA_trehalose	0.031	-1.08