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 Rv2704/-

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

	Rv2658c/-	Rv2704/-
Fe_supp_jason_reseq	0.387	-0.524
low_pH_jason_reseq	-0.974	-1.223
NO_jason_reseq	0.0	0.446
B6_jason_reseq	0.034	0.083
MHCII_jason_reseq	0.572	0.254
Isoniazid02	-0.778	-1.029
Rifampicin4	0.311	0.449
Ethambutol3	-0.143	-0.916
Meropenem3	-1.622	0.277
Vancomycin16	-1.059	0.0
Rv2680_day32	-0.294	-0.596
H37Rv_KO_MarP	0.78	-0.439
hypoxia_3wks	0.279	0.195
hypoxia_6wks	-0.186	-0.616
glycerol	0.265	0.151
cholesterol	0.041	0.028
AJ	-0.655	-0.405
Bibs02	0.229	0.16
Bibs02c	0.391	-0.291
BL6	-0.702	0.321
BL6a	0.564	0.138
BXD01	-0.257	-0.276
BXD010	-0.135	0.537
BXD011	-0.076	0.175
BXD03	0.005	0.16
BXD04	-0.339	0.223
BXD05	0.775	0.547
BXD06	-0.034	0.576
BXD07	0.344	0.11
BXD08	-0.109	-0.318
BXD09	0.098	0.227
CAST	0.444	0.184
CCcont	-0.182	-0.617
DS01	0.05	-0.176
DS02	0.307	0.169
DS04	-0.197	0.214
DS0c	0.732	0.064
GP01	-0.697	0.087
GP02	-0.467	0.714
GP0c	-0.551	-0.067
NOD	0.664	0.508
NZO	0.118	-0.65
PWK	0.448	0.279
H37Rv_KO_CtpC	-0.272	-0.051
H37Rv_KO_CtpD	0.798	-0.442
H37Rv_KO_Rv1272	0.35	0.57
H37Rv_KO_SugABC	0.476	-0.426
H37Rv_KO_MbtN	0.685	0.21
Trans05	0.346	-0.687
macrophage_unactivated	0.309	0.287
IL1	0.653	0.727
Rapamycin	0.715	0.648
Tcell	-0.101	0.251
GMCSF	0.512	1.035
IFNab	0.435	0.868
IFNg	0.446	0.663
IFNg_GMCSF1	0.248	0.553
Rv1432_day32	0.037	-0.01
Rv1565c_day32	0.125	-0.166
secA2_input	-0.254	-0.069
delta_Rv3594	-0.052	-0.219
delta_Rv3717	-0.551	-0.306
delta_Rv3811	-0.425	-0.601
delta_Rv0954	0.133	-0.705
PonA1	-0.97	-0.605
EccD1_KO	0.089	0.069
EspI_KO	0.893	0.151
PE35_KO	0.939	0.245
PPE68_KO	0.189	-0.086
glycerol2	-0.472	-0.021
lignocerate	-0.756	-0.347
oleate	0.191	0.21
phosphatidylcholine	-0.282	-0.325
acetate	-0.233	-0.025
glucAc	-0.879	-1.153
Rv0950ko	0.027	-0.145
Rv1096ko	-0.784	-0.866
Rv3684ko	-0.802	-0.206
delta_otsA_trehalose	1.711	0.659