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 Rv2696c/-

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

	Rv3330/dacB1	Rv2696c/-
Fe_supp_jason_reseq	-0.104	2.276
low_pH_jason_reseq	-0.55	0.843
NO_jason_reseq	-0.381	-0.294
B6_jason_reseq	-0.431	0.047
MHCII_jason_reseq	0.622	-0.228
Isoniazid02	-0.125	-1.775
Rifampicin4	-2.364	-0.241
Ethambutol3	0.266	-3.006
Meropenem3	-1.579	-2.344
Vancomycin16	-0.515	-0.623
Rv2680_day32	-0.82	-1.481
H37Rv_KO_MarP	-1.795	-5.136
hypoxia_3wks	0.271	-0.77
hypoxia_6wks	-0.509	1.462
glycerol	0.173	-1.181
cholesterol	0.537	1.678
AJ	-0.343	-0.914
Bibs02	0.866	1.405
Bibs02c	0.211	0.45
BL6	0.492	0.357
BL6a	0.032	1.313
BXD01	0.0	0.664
BXD010	-0.201	2.192
BXD011	0.336	0.65
BXD03	0.296	1.318
BXD04	0.262	1.019
BXD05	0.631	2.54
BXD06	0.032	1.422
BXD07	0.482	1.083
BXD08	0.291	0.923
BXD09	0.0	1.158
CAST	-0.637	-2.039
CCcont	0.605	2.208
DS01	0.149	0.78
DS02	-0.49	1.336
DS04	0.136	1.434
DS0c	0.327	0.0
GP01	0.723	1.734
GP02	0.751	2.198
GP0c	0.649	1.762
NOD	-0.439	-0.885
NZO	-0.116	-1.631
PWK	0.566	-1.878
H37Rv_KO_CtpC	0.245	0.094
H37Rv_KO_CtpD	-0.649	0.143
H37Rv_KO_Rv1272	0.515	0.912
H37Rv_KO_SugABC	0.664	1.137
H37Rv_KO_MbtN	0.92	2.563
Trans05	0.268	1.447
macrophage_unactivated	0.505	0.969
IL1	0.199	0.561
Rapamycin	0.635	0.58
Tcell	0.339	-0.042
GMCSF	0.784	1.267
IFNab	0.227	0.834
IFNg	0.778	0.567
IFNg_GMCSF1	0.952	-0.041
Rv1432_day32	0.714	1.295
Rv1565c_day32	-0.167	-1.995
secA2_input	-0.291	-3.311
delta_Rv3594	-0.132	0.727
delta_Rv3717	-0.159	2.114
delta_Rv3811	-0.342	1.46
delta_Rv0954	-0.012	0.983
PonA1	0.572	0.055
EccD1_KO	-0.585	-0.312
EspI_KO	-1.469	-1.235
PE35_KO	-1.581	-1.698
PPE68_KO	-1.065	-0.825
glycerol2	-0.111	-0.27
lignocerate	0.106	0.392
oleate	-0.293	-0.588
phosphatidylcholine	-0.398	-0.581
acetate	0.263	1.736
glucAc	0.211	0.78
Rv0950ko	-0.805	-2.421
Rv1096ko	-0.09	-0.603
Rv3684ko	-0.648	-0.714
delta_otsA_trehalose	0.825	3.153