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 Rv1210/tagA:

update plot	correlation	link to info on gene
Rv3263/-	(cc=0.6025)	info on Rv3263/-
Rv2450c/rpfE	(cc=0.5306)	info on Rv2450c/rpfE
Rv1644/tsnR	(cc=0.5236)	info on Rv1644/tsnR
Rv1212c/glgA	(cc=0.4953)	info on Rv1212c/glgA
Rv0346c/ansP2	(cc=0.4752)	info on Rv0346c/ansP2
Rv0829/-	(cc=0.4698)	info on Rv0829/-
Rv2187/fadD15	(cc=0.4595)	info on Rv2187/fadD15
Rv0730/-	(cc=0.4563)	info on Rv0730/-
Rv3647c/-	(cc=0.4559)	info on Rv3647c/-
Rv3167c/-	(cc=0.4304)	info on Rv3167c/-

Correlation of Rv1210/tagA with Rv3263/-

Normalized LFCs for Rv1210/tagA:
(description and provenance of datasets)

	Rv1210/tagA	Rv3263/-
Fe_supp_jason_reseq	-1.395	-1.905
low_pH_jason_reseq	-0.713	-0.959
NO_jason_reseq	2.402	0.837
B6_jason_reseq	0.727	0.922
MHCII_jason_reseq	-0.485	-0.43
Isoniazid02	-1.145	-0.489
Rifampicin4	0.458	0.16
Ethambutol3	-0.148	0.758
Meropenem3	0.414	0.109
Vancomycin16	0.106	-0.695
Rv2680_day32	-0.62	-0.234
H37Rv_KO_MarP	-0.8	-0.452
hypoxia_3wks	0.646	-0.247
hypoxia_6wks	1.923	0.578
glycerol	-1.255	-0.582
cholesterol	-0.962	-0.775
AJ	0.092	-0.21
Bibs02	-0.491	-0.609
Bibs02c	-0.944	-0.332
BL6	0.535	0.115
BL6a	-0.835	-0.258
BXD01	-0.126	0.184
BXD010	0.758	0.337
BXD011	-0.832	1.005
BXD03	-0.762	0.09
BXD04	0.072	0.789
BXD05	0.147	0.495
BXD06	0.442	0.821
BXD07	-0.633	0.652
BXD08	-1.026	0.599
BXD09	-0.83	0.19
CAST	0.999	1.431
CCcont	-1.636	-1.225
DS01	-0.832	-0.944
DS02	-0.447	-0.731
DS04	0.243	-0.682
DS0c	-1.441	-1.051
GP01	-0.973	0.595
GP02	0.011	0.579
GP0c	-0.135	0.048
NOD	-0.026	0.044
NZO	0.527	0.621
PWK	3.022	1.826
H37Rv_KO_CtpC	-0.433	1.37
H37Rv_KO_CtpD	-1.008	0.098
H37Rv_KO_Rv1272	-1.448	-0.939
H37Rv_KO_SugABC	0.879	0.037
H37Rv_KO_MbtN	-0.285	0.144
Trans05	0.537	0.422
macrophage_unactivated	-1.679	-1.591
IL1	0.558	0.027
Rapamycin	-0.353	-0.789
Tcell	0.951	0.469
GMCSF	-0.209	-0.325
IFNab	-0.469	-1.094
IFNg	0.516	0.457
IFNg_GMCSF1	0.167	0.39
Rv1432_day32	-0.128	1.272
Rv1565c_day32	-1.287	-1.303
secA2_input	-0.069	0.507
delta_Rv3594	0.615	0.381
delta_Rv3717	1.492	0.79
delta_Rv3811	0.981	0.272
delta_Rv0954	-0.947	0.044
PonA1	-0.728	-0.117
EccD1_KO	0.026	0.467
EspI_KO	0.973	-0.057
PE35_KO	0.047	0.222
PPE68_KO	0.179	0.042
glycerol2	1.086	0.905
lignocerate	0.643	0.463
oleate	1.793	-0.22
phosphatidylcholine	0.542	1.006
acetate	0.78	-0.12
glucAc	0.213	0.277
Rv0950ko	0.805	0.645
Rv1096ko	1.755	0.193
Rv3684ko	1.179	0.901
delta_otsA_trehalose	-0.85	0.021