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 Rv3330/dacB1:

update plot	correlation	link to info on gene
Rv2190c/-	(cc=0.5632)	info on Rv2190c/-
Rv2696c/-	(cc=0.5628)	info on Rv2696c/-
Rv1006/-	(cc=0.5406)	info on Rv1006/-
Rv1159/pimE	(cc=0.5217)	info on Rv1159/pimE
Rv0431/-	(cc=0.5135)	info on Rv0431/-
Rv3790/dprE1	(cc=0.5052)	info on Rv3790/dprE1
Rv2525c/-	(cc=0.5012)	info on Rv2525c/-
Rv1111c/-	(cc=0.4934)	info on Rv1111c/-
Rv0497/-	(cc=0.4811)	info on Rv0497/-
Rv1701/-	(cc=0.4745)	info on Rv1701/-

Correlation of Rv3330/dacB1 with Rv2190c/-

Normalized LFCs for Rv3330/dacB1:
(description and provenance of datasets)

	Rv3330/dacB1	Rv2190c/-
Fe_supp_jason_reseq	-0.104	2.516
low_pH_jason_reseq	-0.55	-0.221
NO_jason_reseq	-0.381	-3.877
B6_jason_reseq	-0.431	-0.596
MHCII_jason_reseq	0.622	-0.565
Isoniazid02	-0.125	0.563
Rifampicin4	-2.364	-3.541
Ethambutol3	0.266	-2.182
Meropenem3	-1.579	-0.786
Vancomycin16	-0.515	-4.51
Rv2680_day32	-0.82	2.417
H37Rv_KO_MarP	-1.795	-6.0
hypoxia_3wks	0.271	-2.767
hypoxia_6wks	-0.509	-0.228
glycerol	0.173	-0.098
cholesterol	0.537	2.214
AJ	-0.343	-1.276
Bibs02	0.866	0.993
Bibs02c	0.211	1.306
BL6	0.492	3.063
BL6a	0.032	2.749
BXD01	0.0	2.595
BXD010	-0.201	2.438
BXD011	0.336	2.323
BXD03	0.296	2.42
BXD04	0.262	2.446
BXD05	0.631	3.337
BXD06	0.032	3.167
BXD07	0.482	2.933
BXD08	0.291	2.286
BXD09	0.0	3.087
CAST	-0.637	-1.088
CCcont	0.605	3.364
DS01	0.149	1.001
DS02	-0.49	0.0
DS04	0.136	1.359
DS0c	0.327	1.298
GP01	0.723	1.498
GP02	0.751	-0.128
GP0c	0.649	1.031
NOD	-0.439	-1.061
NZO	-0.116	-1.263
PWK	0.566	-0.786
H37Rv_KO_CtpC	0.245	2.295
H37Rv_KO_CtpD	-0.649	1.805
H37Rv_KO_Rv1272	0.515	2.512
H37Rv_KO_SugABC	0.664	1.815
H37Rv_KO_MbtN	0.92	4.046
Trans05	0.268	2.172
macrophage_unactivated	0.505	0.076
IL1	0.199	0.575
Rapamycin	0.635	-0.23
Tcell	0.339	-0.329
GMCSF	0.784	0.568
IFNab	0.227	1.103
IFNg	0.778	1.563
IFNg_GMCSF1	0.952	0.575
Rv1432_day32	0.714	2.996
Rv1565c_day32	-0.167	0.0
secA2_input	-0.291	-4.612
delta_Rv3594	-0.132	2.299
delta_Rv3717	-0.159	2.896
delta_Rv3811	-0.342	2.019
delta_Rv0954	-0.012	0.358
PonA1	0.572	-0.825
EccD1_KO	-0.585	-1.766
EspI_KO	-1.469	-1.634
PE35_KO	-1.581	-3.246
PPE68_KO	-1.065	-1.411
glycerol2	-0.111	-0.531
lignocerate	0.106	-0.462
oleate	-0.293	-0.537
phosphatidylcholine	-0.398	-0.531
acetate	0.263	1.15
glucAc	0.211	0.213
Rv0950ko	-0.805	-6.0
Rv1096ko	-0.09	-1.176
Rv3684ko	-0.648	-0.364
delta_otsA_trehalose	0.825	1.066