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 Rv2190c/-:

update plot	correlation	link to info on gene
Rv1836c/-	(cc=0.8008)	info on Rv1836c/-
Rv2696c/-	(cc=0.7379)	info on Rv2696c/-
Rv3207c/-	(cc=0.7377)	info on Rv3207c/-
Rv3818/-	(cc=0.7001)	info on Rv3818/-
Rv2553c/-	(cc=0.6903)	info on Rv2553c/-
Rv1821/secA2	(cc=0.6858)	info on Rv1821/secA2
Rv0309/-	(cc=0.6767)	info on Rv0309/-
Rv0929/pstC2	(cc=0.6758)	info on Rv0929/pstC2
Rv0820/phoT	(cc=0.6667)	info on Rv0820/phoT
Rv0431/-	(cc=0.6494)	info on Rv0431/-

Correlation of Rv2190c/- with Rv2696c/-

Normalized LFCs for Rv2190c/-:
(description and provenance of datasets)

	Rv2190c/-	Rv2696c/-
Fe_supp_jason_reseq	2.516	2.276
low_pH_jason_reseq	-0.221	0.843
NO_jason_reseq	-3.877	-0.294
B6_jason_reseq	-0.596	0.047
MHCII_jason_reseq	-0.565	-0.228
Isoniazid02	0.563	-1.775
Rifampicin4	-3.541	-0.241
Ethambutol3	-2.182	-3.006
Meropenem3	-0.786	-2.344
Vancomycin16	-4.51	-0.623
Rv2680_day32	2.417	-1.481
H37Rv_KO_MarP	-6.0	-5.136
hypoxia_3wks	-2.767	-0.77
hypoxia_6wks	-0.228	1.462
glycerol	-0.098	-1.181
cholesterol	2.214	1.678
AJ	-1.276	-0.914
Bibs02	0.993	1.405
Bibs02c	1.306	0.45
BL6	3.063	0.357
BL6a	2.749	1.313
BXD01	2.595	0.664
BXD010	2.438	2.192
BXD011	2.323	0.65
BXD03	2.42	1.318
BXD04	2.446	1.019
BXD05	3.337	2.54
BXD06	3.167	1.422
BXD07	2.933	1.083
BXD08	2.286	0.923
BXD09	3.087	1.158
CAST	-1.088	-2.039
CCcont	3.364	2.208
DS01	1.001	0.78
DS02	0.0	1.336
DS04	1.359	1.434
DS0c	1.298	0.0
GP01	1.498	1.734
GP02	-0.128	2.198
GP0c	1.031	1.762
NOD	-1.061	-0.885
NZO	-1.263	-1.631
PWK	-0.786	-1.878
H37Rv_KO_CtpC	2.295	0.094
H37Rv_KO_CtpD	1.805	0.143
H37Rv_KO_Rv1272	2.512	0.912
H37Rv_KO_SugABC	1.815	1.137
H37Rv_KO_MbtN	4.046	2.563
Trans05	2.172	1.447
macrophage_unactivated	0.076	0.969
IL1	0.575	0.561
Rapamycin	-0.23	0.58
Tcell	-0.329	-0.042
GMCSF	0.568	1.267
IFNab	1.103	0.834
IFNg	1.563	0.567
IFNg_GMCSF1	0.575	-0.041
Rv1432_day32	2.996	1.295
Rv1565c_day32	0.0	-1.995
secA2_input	-4.612	-3.311
delta_Rv3594	2.299	0.727
delta_Rv3717	2.896	2.114
delta_Rv3811	2.019	1.46
delta_Rv0954	0.358	0.983
PonA1	-0.825	0.055
EccD1_KO	-1.766	-0.312
EspI_KO	-1.634	-1.235
PE35_KO	-3.246	-1.698
PPE68_KO	-1.411	-0.825
glycerol2	-0.531	-0.27
lignocerate	-0.462	0.392
oleate	-0.537	-0.588
phosphatidylcholine	-0.531	-0.581
acetate	1.15	1.736
glucAc	0.213	0.78
Rv0950ko	-6.0	-2.421
Rv1096ko	-1.176	-0.603
Rv3684ko	-0.364	-0.714
delta_otsA_trehalose	1.066	3.153