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 Rv2607/pdxH:

update plot	correlation	link to info on gene
Rv2219/-	(cc=0.5654)	info on Rv2219/-
Rv2237/-	(cc=0.543)	info on Rv2237/-
Rv1062/-	(cc=0.541)	info on Rv1062/-
Rv3208A/TB9.4	(cc=0.5368)	info on Rv3208A/TB9.4
Rv2307A/-	(cc=0.5355)	info on Rv2307A/-
Rv0042c/-	(cc=0.5271)	info on Rv0042c/-
Rv2008c/-	(cc=0.5189)	info on Rv2008c/-
Rv1987/-	(cc=0.516)	info on Rv1987/-
Rv2821c/-	(cc=0.4862)	info on Rv2821c/-
Rv2019/-	(cc=0.4818)	info on Rv2019/-

Correlation of Rv2607/pdxH with Rv2821c/-

Normalized LFCs for Rv2607/pdxH:
(description and provenance of datasets)

	Rv2607/pdxH	Rv2821c/-
Fe_supp_jason_reseq	0.096	0.314
low_pH_jason_reseq	-0.31	0.296
NO_jason_reseq	-1.664	-0.273
B6_jason_reseq	-0.401	0.588
MHCII_jason_reseq	0.581	-1.292
Isoniazid02	-1.104	-0.194
Rifampicin4	0.85	0.523
Ethambutol3	-0.803	-0.485
Meropenem3	-0.355	1.93
Vancomycin16	-0.515	0.244
Rv2680_day32	-0.08	1.795
H37Rv_KO_MarP	-0.172	-0.076
hypoxia_3wks	-0.674	-0.778
hypoxia_6wks	-0.447	-0.441
glycerol	0.513	-0.064
cholesterol	0.199	-0.063
AJ	0.027	0.277
Bibs02	-0.585	-0.314
Bibs02c	-0.247	0.15
BL6	0.401	0.535
BL6a	-0.468	0.466
BXD01	-0.439	0.371
BXD010	0.284	-0.269
BXD011	-0.117	-0.098
BXD03	0.374	0.772
BXD04	-0.238	0.87
BXD05	0.776	0.575
BXD06	0.0	0.055
BXD07	-0.277	0.112
BXD08	-0.032	0.244
BXD09	-0.184	-0.14
CAST	0.432	0.619
CCcont	0.512	0.852
DS01	0.226	0.098
DS02	0.05	0.176
DS04	-0.191	0.304
DS0c	0.449	0.473
GP01	0.478	0.622
GP02	-0.287	1.579
GP0c	-0.055	0.471
NOD	1.442	0.093
NZO	0.147	0.162
PWK	0.057	0.462
H37Rv_KO_CtpC	-0.235	0.761
H37Rv_KO_CtpD	0.305	0.21
H37Rv_KO_Rv1272	-0.016	1.23
H37Rv_KO_SugABC	0.927	0.697
H37Rv_KO_MbtN	-0.33	-0.487
Trans05	0.491	0.883
macrophage_unactivated	0.0	0.505
IL1	-0.596	-0.831
Rapamycin	-0.715	-0.47
Tcell	-1.323	0.117
GMCSF	-0.837	-1.022
IFNab	-0.127	-1.572
IFNg	-0.756	-1.253
IFNg_GMCSF1	-0.968	-0.525
Rv1432_day32	0.608	-0.261
Rv1565c_day32	-0.131	-0.389
secA2_input	-0.294	-0.056
delta_Rv3594	1.64	0.431
delta_Rv3717	1.367	0.081
delta_Rv3811	1.48	0.757
delta_Rv0954	-0.039	0.049
PonA1	-1.272	-0.504
EccD1_KO	0.194	0.75
EspI_KO	-0.057	-0.445
PE35_KO	0.796	0.508
PPE68_KO	0.23	0.192
glycerol2	0.799	1.24
lignocerate	1.642	1.789
oleate	-0.54	-0.238
phosphatidylcholine	1.912	1.263
acetate	1.338	1.829
glucAc	1.263	1.276
Rv0950ko	-0.431	0.256
Rv1096ko	-0.709	-0.368
Rv3684ko	-0.675	-0.835
delta_otsA_trehalose	-0.459	0.535