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 Rv1279/-:

update plot	correlation	link to info on gene
Rv2285/-	(cc=0.5662)	info on Rv2285/-
Rv2089c/pepE	(cc=0.5395)	info on Rv2089c/pepE
Rv1104/-	(cc=0.5362)	info on Rv1104/-
Rv1935c/echA13	(cc=0.5151)	info on Rv1935c/echA13
Rv2319c/-	(cc=0.5132)	info on Rv2319c/-
Rv2913c/-	(cc=0.513)	info on Rv2913c/-
Rv0962c/lprP	(cc=0.5093)	info on Rv0962c/lprP
Rv2515c/-	(cc=0.4948)	info on Rv2515c/-
Rv0177/-	(cc=0.4943)	info on Rv0177/-
Rv2629/-	(cc=0.4875)	info on Rv2629/-

Correlation of Rv1279/- with Rv2515c/-

Normalized LFCs for Rv1279/-:
(description and provenance of datasets)

	Rv1279/-	Rv2515c/-
Fe_supp_jason_reseq	0.508	-0.103
low_pH_jason_reseq	0.13	1.268
NO_jason_reseq	0.399	-0.171
B6_jason_reseq	0.578	0.448
MHCII_jason_reseq	0.125	0.998
Isoniazid02	0.451	0.15
Rifampicin4	0.065	0.498
Ethambutol3	0.85	0.844
Meropenem3	2.217	-0.087
Vancomycin16	0.098	-0.143
Rv2680_day32	0.171	0.981
H37Rv_KO_MarP	-0.223	-0.491
hypoxia_3wks	0.443	0.355
hypoxia_6wks	0.37	0.0
glycerol	-0.884	-0.721
cholesterol	-0.325	-0.997
AJ	-0.212	-0.294
Bibs02	0.506	-0.852
Bibs02c	-0.541	-0.641
BL6	-0.008	-0.714
BL6a	-0.349	-0.867
BXD01	-0.326	-1.068
BXD010	-0.035	-0.881
BXD011	-0.224	-1.427
BXD03	-0.114	-1.282
BXD04	-0.42	-0.143
BXD05	0.293	-0.271
BXD06	0.0	-0.742
BXD07	0.295	-0.929
BXD08	-0.299	-1.421
BXD09	-0.118	-1.018
CAST	0.092	-0.063
CCcont	-0.919	-1.082
DS01	-0.115	-0.044
DS02	-0.199	0.263
DS04	-0.42	-0.11
DS0c	-0.949	-0.511
GP01	0.389	-0.244
GP02	0.542	0.233
GP0c	0.233	-0.533
NOD	-0.763	0.597
NZO	0.532	-0.231
PWK	0.141	-0.554
H37Rv_KO_CtpC	0.095	-0.828
H37Rv_KO_CtpD	-1.052	-1.118
H37Rv_KO_Rv1272	-0.341	-0.829
H37Rv_KO_SugABC	0.199	-0.614
H37Rv_KO_MbtN	-0.888	-0.977
Trans05	0.313	-0.206
macrophage_unactivated	-0.057	-0.565
IL1	-0.219	-0.347
Rapamycin	0.055	0.224
Tcell	-0.463	-0.795
GMCSF	0.14	-0.705
IFNab	-0.054	-0.541
IFNg	0.476	-0.259
IFNg_GMCSF1	0.085	-0.242
Rv1432_day32	-0.076	-0.18
Rv1565c_day32	0.711	-0.385
secA2_input	0.0	-1.403
delta_Rv3594	0.229	0.416
delta_Rv3717	1.022	0.814
delta_Rv3811	0.955	1.038
delta_Rv0954	0.425	0.744
PonA1	0.314	-0.893
EccD1_KO	0.773	0.622
EspI_KO	0.813	1.557
PE35_KO	0.761	1.231
PPE68_KO	0.953	0.605
glycerol2	-0.406	-0.07
lignocerate	-0.712	-0.683
oleate	0.045	-0.846
phosphatidylcholine	-0.602	-0.335
acetate	-0.372	-0.65
glucAc	-1.103	-0.247
Rv0950ko	-0.473	-0.072
Rv1096ko	0.332	1.143
Rv3684ko	0.498	0.593
delta_otsA_trehalose	-0.57	-0.706