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 Rv1962A/vapB35

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

	Rv1552/frdA	Rv1962A/vapB35
Fe_supp_jason_reseq	-0.283	-2.087
low_pH_jason_reseq	0.679	0.751
NO_jason_reseq	0.097	-1.016
B6_jason_reseq	-0.246	-1.721
MHCII_jason_reseq	-0.375	-1.617
Isoniazid02	1.394	2.993
Rifampicin4	0.057	0.249
Ethambutol3	1.083	2.526
Meropenem3	-0.103	0.248
Vancomycin16	0.162	0.716
Rv2680_day32	0.071	1.845
H37Rv_KO_MarP	0.275	-0.189
hypoxia_3wks	0.638	0.116
hypoxia_6wks	0.255	0.031
glycerol	0.0	0.0
cholesterol	0.219	0.461
AJ	1.106	-0.126
Bibs02	0.474	0.032
Bibs02c	0.196	-1.338
BL6	0.225	1.12
BL6a	0.244	-0.145
BXD01	0.252	1.863
BXD010	0.379	0.637
BXD011	0.229	1.169
BXD03	-0.349	1.383
BXD04	-0.345	-0.267
BXD05	0.106	0.594
BXD06	-0.067	1.383
BXD07	0.526	0.953
BXD08	0.239	2.545
BXD09	0.252	1.258
CAST	0.0	-0.706
CCcont	0.048	0.855
DS01	-0.2	1.042
DS02	-0.852	-1.32
DS04	-0.032	-0.461
DS0c	-0.427	0.255
GP01	0.577	1.804
GP02	0.216	0.565
GP0c	0.369	1.454
NOD	1.185	1.705
NZO	0.889	-2.362
PWK	0.405	-0.51
H37Rv_KO_CtpC	0.824	0.43
H37Rv_KO_CtpD	1.188	2.829
H37Rv_KO_Rv1272	1.044	1.058
H37Rv_KO_SugABC	0.293	0.46
H37Rv_KO_MbtN	0.491	-0.34
Trans05	0.701	2.557
macrophage_unactivated	0.268	0.051
IL1	0.605	-1.109
Rapamycin	0.196	-1.746
Tcell	0.538	1.838
GMCSF	-0.058	-0.882
IFNab	-0.417	-0.665
IFNg	-0.305	-0.259
IFNg_GMCSF1	0.267	0.333
Rv1432_day32	0.121	-0.488
Rv1565c_day32	0.065	-0.177
secA2_input	-0.269	-1.324
delta_Rv3594	0.358	0.575
delta_Rv3717	-0.138	-0.272
delta_Rv3811	0.402	0.458
delta_Rv0954	0.326	-0.293
PonA1	-0.353	0.434
EccD1_KO	0.122	2.174
EspI_KO	0.787	1.437
PE35_KO	0.939	2.896
PPE68_KO	1.078	2.377
glycerol2	0.0	0.113
lignocerate	-0.069	-0.946
oleate	0.2	1.197
phosphatidylcholine	0.126	0.203
acetate	0.03	-0.893
glucAc	0.128	-1.917
Rv0950ko	-0.326	-0.546
Rv1096ko	-0.73	0.377
Rv3684ko	-1.343	-0.593
delta_otsA_trehalose	0.031	0.654