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 Rv2658c/-:

update plot	correlation	link to info on gene
Rv2345/-	(cc=0.5726)	info on Rv2345/-
Rv1947/-	(cc=0.5511)	info on Rv1947/-
Rv1916/aceAb	(cc=0.4909)	info on Rv1916/aceAb
Rv2634c/PE_PGRS46	(cc=0.4838)	info on Rv2634c/PE_PGRS46
Rv3451/cut3	(cc=0.4631)	info on Rv3451/cut3
Rv2791c/-	(cc=0.4541)	info on Rv2791c/-
Rv0078/-	(cc=0.4515)	info on Rv0078/-
Rv1000c/-	(cc=0.4466)	info on Rv1000c/-
Rv2336/-	(cc=0.4412)	info on Rv2336/-
Rv2704/-	(cc=0.4381)	info on Rv2704/-

Correlation of Rv2658c/- with Rv1947/-

Normalized LFCs for Rv2658c/-:
(description and provenance of datasets)

	Rv2658c/-	Rv1947/-
Fe_supp_jason_reseq	0.387	-0.837
low_pH_jason_reseq	-0.974	-1.733
NO_jason_reseq	0.0	-0.557
B6_jason_reseq	0.034	-0.522
MHCII_jason_reseq	0.572	-0.579
Isoniazid02	-0.778	-3.635
Rifampicin4	0.311	0.36
Ethambutol3	-0.143	-3.496
Meropenem3	-1.622	-2.943
Vancomycin16	-1.059	-1.727
Rv2680_day32	-0.294	-0.791
H37Rv_KO_MarP	0.78	-0.776
hypoxia_3wks	0.279	0.239
hypoxia_6wks	-0.186	-0.182
glycerol	0.265	-0.575
cholesterol	0.041	-0.088
AJ	-0.655	0.37
Bibs02	0.229	0.156
Bibs02c	0.391	0.406
BL6	-0.702	0.333
BL6a	0.564	0.234
BXD01	-0.257	0.359
BXD010	-0.135	1.362
BXD011	-0.076	0.022
BXD03	0.005	1.131
BXD04	-0.339	0.618
BXD05	0.775	0.617
BXD06	-0.034	0.74
BXD07	0.344	0.49
BXD08	-0.109	0.143
BXD09	0.098	0.431
CAST	0.444	0.053
CCcont	-0.182	-0.335
DS01	0.05	-0.267
DS02	0.307	-1.111
DS04	-0.197	0.443
DS0c	0.732	0.506
GP01	-0.697	-0.715
GP02	-0.467	-1.404
GP0c	-0.551	0.842
NOD	0.664	-0.623
NZO	0.118	-0.998
PWK	0.448	-0.301
H37Rv_KO_CtpC	-0.272	0.966
H37Rv_KO_CtpD	0.798	0.688
H37Rv_KO_Rv1272	0.35	-0.413
H37Rv_KO_SugABC	0.476	2.349
H37Rv_KO_MbtN	0.685	-0.395
Trans05	0.346	0.558
macrophage_unactivated	0.309	1.004
IL1	0.653	0.958
Rapamycin	0.715	1.897
Tcell	-0.101	0.844
GMCSF	0.512	1.36
IFNab	0.435	2.143
IFNg	0.446	1.451
IFNg_GMCSF1	0.248	2.046
Rv1432_day32	0.037	-1.632
Rv1565c_day32	0.125	-0.303
secA2_input	-0.254	0.011
delta_Rv3594	-0.052	0.076
delta_Rv3717	-0.551	0.143
delta_Rv3811	-0.425	0.718
delta_Rv0954	0.133	-1.416
PonA1	-0.97	0.048
EccD1_KO	0.089	-0.506
EspI_KO	0.893	-0.074
PE35_KO	0.939	0.65
PPE68_KO	0.189	0.179
glycerol2	-0.472	0.063
lignocerate	-0.756	-0.9
oleate	0.191	1.014
phosphatidylcholine	-0.282	-0.123
acetate	-0.233	-1.401
glucAc	-0.879	-2.763
Rv0950ko	0.027	-0.615
Rv1096ko	-0.784	-2.069
Rv3684ko	-0.802	-2.168
delta_otsA_trehalose	1.711	3.544