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 Rv2336/-

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

	Rv2658c/-	Rv2336/-
Fe_supp_jason_reseq	0.387	0.957
low_pH_jason_reseq	-0.974	0.296
NO_jason_reseq	0.0	-0.226
B6_jason_reseq	0.034	0.296
MHCII_jason_reseq	0.572	0.261
Isoniazid02	-0.778	-1.717
Rifampicin4	0.311	0.26
Ethambutol3	-0.143	-1.234
Meropenem3	-1.622	-1.732
Vancomycin16	-1.059	-0.764
Rv2680_day32	-0.294	0.23
H37Rv_KO_MarP	0.78	-0.711
hypoxia_3wks	0.279	0.598
hypoxia_6wks	-0.186	0.489
glycerol	0.265	-1.232
cholesterol	0.041	-1.109
AJ	-0.655	0.578
Bibs02	0.229	0.175
Bibs02c	0.391	1.473
BL6	-0.702	0.208
BL6a	0.564	1.588
BXD01	-0.257	1.194
BXD010	-0.135	0.953
BXD011	-0.076	0.433
BXD03	0.005	0.499
BXD04	-0.339	0.605
BXD05	0.775	0.847
BXD06	-0.034	0.529
BXD07	0.344	1.581
BXD08	-0.109	0.633
BXD09	0.098	0.885
CAST	0.444	0.344
CCcont	-0.182	0.275
DS01	0.05	0.092
DS02	0.307	-1.033
DS04	-0.197	0.742
DS0c	0.732	1.032
GP01	-0.697	-0.062
GP02	-0.467	0.594
GP0c	-0.551	0.384
NOD	0.664	0.296
NZO	0.118	0.949
PWK	0.448	0.293
H37Rv_KO_CtpC	-0.272	1.257
H37Rv_KO_CtpD	0.798	2.329
H37Rv_KO_Rv1272	0.35	0.759
H37Rv_KO_SugABC	0.476	0.794
H37Rv_KO_MbtN	0.685	1.483
Trans05	0.346	1.688
macrophage_unactivated	0.309	0.761
IL1	0.653	0.252
Rapamycin	0.715	-0.727
Tcell	-0.101	0.342
GMCSF	0.512	0.114
IFNab	0.435	-0.562
IFNg	0.446	1.066
IFNg_GMCSF1	0.248	-0.745
Rv1432_day32	0.037	-0.679
Rv1565c_day32	0.125	0.047
secA2_input	-0.254	-0.794
delta_Rv3594	-0.052	0.098
delta_Rv3717	-0.551	0.132
delta_Rv3811	-0.425	0.712
delta_Rv0954	0.133	-0.842
PonA1	-0.97	-0.274
EccD1_KO	0.089	0.523
EspI_KO	0.893	-0.054
PE35_KO	0.939	0.971
PPE68_KO	0.189	0.72
glycerol2	-0.472	0.059
lignocerate	-0.756	-0.279
oleate	0.191	0.37
phosphatidylcholine	-0.282	0.101
acetate	-0.233	-0.886
glucAc	-0.879	-0.649
Rv0950ko	0.027	-0.22
Rv1096ko	-0.784	-0.513
Rv3684ko	-0.802	-1.113
delta_otsA_trehalose	1.711	1.602