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 Rv3636/-:

update plot	correlation	link to info on gene
Rv0446c/-	(cc=0.474)	info on Rv0446c/-
Rv0926c/-	(cc=0.4461)	info on Rv0926c/-
Rv0557/mgtA	(cc=0.4454)	info on Rv0557/mgtA
Rv3739c/PPE67	(cc=0.4134)	info on Rv3739c/PPE67
Rv0811c/-	(cc=0.4134)	info on Rv0811c/-
Rv1191/-	(cc=0.4036)	info on Rv1191/-
Rv3561/fadD3	(cc=0.4023)	info on Rv3561/fadD3
Rv3521/-	(cc=0.3937)	info on Rv3521/-
Rv0117/oxyS	(cc=0.3881)	info on Rv0117/oxyS
Rv3761c/fadE36	(cc=0.3846)	info on Rv3761c/fadE36

Correlation of Rv3636/- with Rv0926c/-

Normalized LFCs for Rv3636/-:
(description and provenance of datasets)

	Rv3636/-	Rv0926c/-
Fe_supp_jason_reseq	0.559	0.06
low_pH_jason_reseq	-0.032	0.519
NO_jason_reseq	1.391	0.05
B6_jason_reseq	0.093	-0.357
MHCII_jason_reseq	0.991	0.709
Isoniazid02	0.288	0.895
Rifampicin4	0.707	0.761
Ethambutol3	0.136	0.927
Meropenem3	1.744	0.022
Vancomycin16	0.875	0.414
Rv2680_day32	-2.621	-1.629
H37Rv_KO_MarP	0.831	0.12
hypoxia_3wks	0.315	-0.104
hypoxia_6wks	-0.453	-1.303
glycerol	1.059	0.63
cholesterol	-0.057	0.111
AJ	0.977	-0.629
Bibs02	-0.766	-0.391
Bibs02c	-0.418	-0.899
BL6	-0.488	0.28
BL6a	-0.284	0.274
BXD01	0.873	0.015
BXD010	0.852	0.814
BXD011	0.591	0.753
BXD03	-0.509	0.79
BXD04	-0.012	0.552
BXD05	0.331	0.443
BXD06	0.349	0.634
BXD07	0.864	0.638
BXD08	0.585	0.298
BXD09	0.336	0.414
CAST	-0.232	0.474
CCcont	-0.231	0.621
DS01	0.195	-0.224
DS02	0.274	-0.347
DS04	0.357	-0.388
DS0c	-0.385	-0.493
GP01	-0.386	-1.476
GP02	0.451	-0.641
GP0c	0.798	-0.451
NOD	-1.362	-0.132
NZO	1.445	0.131
PWK	1.017	0.108
H37Rv_KO_CtpC	0.246	0.918
H37Rv_KO_CtpD	0.36	-0.015
H37Rv_KO_Rv1272	0.909	0.25
H37Rv_KO_SugABC	0.206	0.672
H37Rv_KO_MbtN	0.407	-0.657
Trans05	1.694	0.862
macrophage_unactivated	-0.041	0.35
IL1	0.62	0.353
Rapamycin	0.979	0.838
Tcell	0.492	-0.088
GMCSF	0.301	1.278
IFNab	-0.248	0.623
IFNg	0.853	1.243
IFNg_GMCSF1	1.295	1.81
Rv1432_day32	-0.18	0.0
Rv1565c_day32	0.329	-0.112
secA2_input	-0.675	0.556
delta_Rv3594	-1.104	0.359
delta_Rv3717	-0.106	-0.272
delta_Rv3811	-0.462	0.0
delta_Rv0954	0.49	0.457
PonA1	-0.021	-0.431
EccD1_KO	-0.335	-0.724
EspI_KO	0.251	0.242
PE35_KO	0.172	-0.403
PPE68_KO	0.096	-0.442
glycerol2	0.097	0.113
lignocerate	-0.077	-0.196
oleate	0.62	-0.364
phosphatidylcholine	0.06	-0.204
acetate	-0.432	-0.023
glucAc	-0.582	0.056
Rv0950ko	0.938	1.067
Rv1096ko	2.129	0.754
Rv3684ko	1.634	0.684
delta_otsA_trehalose	-1.138	-0.311