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 Rv3134c/-:

update plot	correlation	link to info on gene
Rv0042c/-	(cc=0.4637)	info on Rv0042c/-
Rv0472c/-	(cc=0.4616)	info on Rv0472c/-
Rv3428c/-	(cc=0.4586)	info on Rv3428c/-
Rv0821c/phoY2	(cc=0.4373)	info on Rv0821c/phoY2
Rv3301c/phoY1	(cc=0.4182)	info on Rv3301c/phoY1
Rv0825c/-	(cc=0.4136)	info on Rv0825c/-
Rv3816c/-	(cc=0.4134)	info on Rv3816c/-
Rv0739/-	(cc=0.4099)	info on Rv0739/-
Rv3667/acs	(cc=0.4087)	info on Rv3667/acs
Rv0871/cspB	(cc=0.4082)	info on Rv0871/cspB

Correlation of Rv3134c/- with Rv0042c/-

Normalized LFCs for Rv3134c/-:
(description and provenance of datasets)

	Rv3134c/-	Rv0042c/-
Fe_supp_jason_reseq	0.0	-0.429
low_pH_jason_reseq	-0.492	2.832
NO_jason_reseq	-0.063	-1.168
B6_jason_reseq	0.733	-1.443
MHCII_jason_reseq	1.14	0.527
Isoniazid02	0.333	0.24
Rifampicin4	-0.03	-0.915
Ethambutol3	0.421	1.484
Meropenem3	-0.52	-0.53
Vancomycin16	0.042	-1.47
Rv2680_day32	0.543	0.249
H37Rv_KO_MarP	-0.069	-1.381
hypoxia_3wks	-3.054	-2.703
hypoxia_6wks	-1.042	-2.955
glycerol	-0.633	0.231
cholesterol	-0.469	-0.36
AJ	-0.146	-0.761
Bibs02	0.595	-0.319
Bibs02c	-0.308	-0.317
BL6	1.749	2.042
BL6a	0.159	0.644
BXD01	-0.13	1.487
BXD010	0.373	1.227
BXD011	0.597	-0.026
BXD03	0.772	2.173
BXD04	0.13	1.113
BXD05	0.86	0.154
BXD06	0.154	0.511
BXD07	0.811	0.605
BXD08	0.465	0.793
BXD09	0.256	1.114
CAST	0.711	0.179
CCcont	0.286	2.186
DS01	0.009	-0.25
DS02	1.353	-0.54
DS04	0.32	-1.33
DS0c	0.765	1.141
GP01	0.315	1.385
GP02	-0.512	0.271
GP0c	-0.01	2.192
NOD	0.304	-0.446
NZO	0.052	-0.04
PWK	-1.276	0.52
H37Rv_KO_CtpC	-0.945	0.95
H37Rv_KO_CtpD	-0.852	2.27
H37Rv_KO_Rv1272	0.005	1.846
H37Rv_KO_SugABC	0.799	-1.157
H37Rv_KO_MbtN	1.522	1.155
Trans05	0.369	1.371
macrophage_unactivated	0.473	0.669
IL1	0.753	0.05
Rapamycin	0.448	-0.638
Tcell	-0.026	-0.176
GMCSF	0.087	-0.549
IFNab	1.264	-0.275
IFNg	-0.559	-1.539
IFNg_GMCSF1	-0.013	-0.984
Rv1432_day32	2.211	4.1
Rv1565c_day32	0.148	-0.415
secA2_input	0.077	0.484
delta_Rv3594	0.78	2.183
delta_Rv3717	1.355	2.034
delta_Rv3811	0.806	1.828
delta_Rv0954	0.456	0.766
PonA1	0.212	0.856
EccD1_KO	-1.289	-0.895
EspI_KO	-0.83	-2.13
PE35_KO	-0.688	-0.356
PPE68_KO	-0.797	0.403
glycerol2	0.586	3.869
lignocerate	1.436	3.653
oleate	0.492	-1.202
phosphatidylcholine	0.919	3.064
acetate	0.695	3.807
glucAc	0.655	3.201
Rv0950ko	-0.172	-0.476
Rv1096ko	0.323	-2.063
Rv3684ko	-0.534	-0.252
delta_otsA_trehalose	-0.396	0.739