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 Rv3739c/PPE67

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

	Rv3636/-	Rv3739c/PPE67
Fe_supp_jason_reseq	0.559	0.314
low_pH_jason_reseq	-0.032	-1.399
NO_jason_reseq	1.391	0.018
B6_jason_reseq	0.093	-0.706
MHCII_jason_reseq	0.991	-1.017
Isoniazid02	0.288	0.451
Rifampicin4	0.707	0.425
Ethambutol3	0.136	-0.071
Meropenem3	1.744	1.186
Vancomycin16	0.875	0.088
Rv2680_day32	-2.621	-2.812
H37Rv_KO_MarP	0.831	0.052
hypoxia_3wks	0.315	0.255
hypoxia_6wks	-0.453	-0.2
glycerol	1.059	0.284
cholesterol	-0.057	-0.106
AJ	0.977	-0.536
Bibs02	-0.766	-1.24
Bibs02c	-0.418	0.702
BL6	-0.488	0.241
BL6a	-0.284	0.75
BXD01	0.873	1.14
BXD010	0.852	0.287
BXD011	0.591	1.579
BXD03	-0.509	0.864
BXD04	-0.012	-0.072
BXD05	0.331	0.414
BXD06	0.349	0.643
BXD07	0.864	0.201
BXD08	0.585	0.381
BXD09	0.336	0.527
CAST	-0.232	-1.093
CCcont	-0.231	-0.065
DS01	0.195	0.263
DS02	0.274	-0.284
DS04	0.357	-0.142
DS0c	-0.385	0.418
GP01	-0.386	0.802
GP02	0.451	0.728
GP0c	0.798	0.694
NOD	-1.362	0.073
NZO	1.445	1.295
PWK	1.017	0.027
H37Rv_KO_CtpC	0.246	1.153
H37Rv_KO_CtpD	0.36	0.204
H37Rv_KO_Rv1272	0.909	-0.067
H37Rv_KO_SugABC	0.206	0.067
H37Rv_KO_MbtN	0.407	-0.69
Trans05	1.694	0.995
macrophage_unactivated	-0.041	0.502
IL1	0.62	0.454
Rapamycin	0.979	0.393
Tcell	0.492	0.499
GMCSF	0.301	-0.018
IFNab	-0.248	0.913
IFNg	0.853	0.457
IFNg_GMCSF1	1.295	-0.217
Rv1432_day32	-0.18	-0.224
Rv1565c_day32	0.329	-0.305
secA2_input	-0.675	0.581
delta_Rv3594	-1.104	0.04
delta_Rv3717	-0.106	-0.19
delta_Rv3811	-0.462	-0.523
delta_Rv0954	0.49	0.071
PonA1	-0.021	-0.374
EccD1_KO	-0.335	0.135
EspI_KO	0.251	-0.653
PE35_KO	0.172	-1.059
PPE68_KO	0.096	-1.069
glycerol2	0.097	0.493
lignocerate	-0.077	-0.006
oleate	0.62	0.885
phosphatidylcholine	0.06	0.429
acetate	-0.432	0.253
glucAc	-0.582	-0.81
Rv0950ko	0.938	1.119
Rv1096ko	2.129	0.691
Rv3684ko	1.634	1.706
delta_otsA_trehalose	-1.138	1.334