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 Rv2976c/ung:

update plot	correlation	link to info on gene
Rv1975/-	(cc=0.4787)	info on Rv1975/-
Rv1414/-	(cc=0.4786)	info on Rv1414/-
Rv1855c/-	(cc=0.4523)	info on Rv1855c/-
Rv2800/-	(cc=0.4519)	info on Rv2800/-
Rv2228c/-	(cc=0.4413)	info on Rv2228c/-
Rv2840c/-	(cc=0.4371)	info on Rv2840c/-
Rv1060/-	(cc=0.4334)	info on Rv1060/-
Rv2704/-	(cc=0.4081)	info on Rv2704/-
Rv2302/-	(cc=0.4013)	info on Rv2302/-
Rv3306c/amiB1	(cc=0.3972)	info on Rv3306c/amiB1

Correlation of Rv2976c/ung with Rv2704/-

Normalized LFCs for Rv2976c/ung:
(description and provenance of datasets)

	Rv2976c/ung	Rv2704/-
Fe_supp_jason_reseq	-0.213	-0.524
low_pH_jason_reseq	-0.149	-1.223
NO_jason_reseq	-0.173	0.446
B6_jason_reseq	-0.437	0.083
MHCII_jason_reseq	0.633	0.254
Isoniazid02	-0.06	-1.029
Rifampicin4	0.417	0.449
Ethambutol3	1.3	-0.916
Meropenem3	0.117	0.277
Vancomycin16	0.31	0.0
Rv2680_day32	-1.669	-0.596
H37Rv_KO_MarP	-0.47	-0.439
hypoxia_3wks	1.603	0.195
hypoxia_6wks	0.48	-0.616
glycerol	1.442	0.151
cholesterol	-0.415	0.028
AJ	-0.309	-0.405
Bibs02	0.898	0.16
Bibs02c	0.735	-0.291
BL6	-1.761	0.321
BL6a	0.867	0.138
BXD01	1.158	-0.276
BXD010	0.33	0.537
BXD011	-0.4	0.175
BXD03	1.626	0.16
BXD04	0.236	0.223
BXD05	0.391	0.547
BXD06	0.408	0.576
BXD07	0.944	0.11
BXD08	0.0	-0.318
BXD09	0.88	0.227
CAST	0.594	0.184
CCcont	-0.601	-0.617
DS01	2.034	-0.176
DS02	1.793	0.169
DS04	0.468	0.214
DS0c	1.383	0.064
GP01	0.912	0.087
GP02	1.42	0.714
GP0c	0.622	-0.067
NOD	1.764	0.508
NZO	-1.618	-0.65
PWK	0.269	0.279
H37Rv_KO_CtpC	-1.935	-0.051
H37Rv_KO_CtpD	-1.889	-0.442
H37Rv_KO_Rv1272	-1.144	0.57
H37Rv_KO_SugABC	1.012	-0.426
H37Rv_KO_MbtN	0.141	0.21
Trans05	-0.144	-0.687
macrophage_unactivated	1.401	0.287
IL1	0.273	0.727
Rapamycin	1.089	0.648
Tcell	1.724	0.251
GMCSF	1.352	1.035
IFNab	0.278	0.868
IFNg	-0.329	0.663
IFNg_GMCSF1	-0.386	0.553
Rv1432_day32	0.382	-0.01
Rv1565c_day32	0.0	-0.166
secA2_input	-1.246	-0.069
delta_Rv3594	-1.455	-0.219
delta_Rv3717	-0.629	-0.306
delta_Rv3811	-1.938	-0.601
delta_Rv0954	-1.606	-0.705
PonA1	-1.07	-0.605
EccD1_KO	2.312	0.069
EspI_KO	0.456	0.151
PE35_KO	0.957	0.245
PPE68_KO	0.432	-0.086
glycerol2	-0.957	-0.021
lignocerate	-1.889	-0.347
oleate	0.469	0.21
phosphatidylcholine	-1.119	-0.325
acetate	-1.378	-0.025
glucAc	-2.208	-1.153
Rv0950ko	-0.519	-0.145
Rv1096ko	-1.354	-0.866
Rv3684ko	1.172	-0.206
delta_otsA_trehalose	-0.096	0.659