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 Rv3301c/phoY1

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

	Rv3134c/-	Rv3301c/phoY1
Fe_supp_jason_reseq	0.0	0.633
low_pH_jason_reseq	-0.492	-0.515
NO_jason_reseq	-0.063	0.189
B6_jason_reseq	0.733	-0.846
MHCII_jason_reseq	1.14	1.171
Isoniazid02	0.333	-0.781
Rifampicin4	-0.03	-1.362
Ethambutol3	0.421	-0.741
Meropenem3	-0.52	-0.521
Vancomycin16	0.042	-0.783
Rv2680_day32	0.543	-0.799
H37Rv_KO_MarP	-0.069	0.04
hypoxia_3wks	-3.054	-3.369
hypoxia_6wks	-1.042	-2.648
glycerol	-0.633	-0.167
cholesterol	-0.469	-1.3
AJ	-0.146	-0.425
Bibs02	0.595	-0.539
Bibs02c	-0.308	0.144
BL6	1.749	1.166
BL6a	0.159	0.263
BXD01	-0.13	0.677
BXD010	0.373	0.399
BXD011	0.597	0.494
BXD03	0.772	0.301
BXD04	0.13	-0.033
BXD05	0.86	-0.086
BXD06	0.154	0.297
BXD07	0.811	0.562
BXD08	0.465	0.602
BXD09	0.256	0.429
CAST	0.711	0.12
CCcont	0.286	0.633
DS01	0.009	0.041
DS02	1.353	-1.186
DS04	0.32	0.417
DS0c	0.765	0.149
GP01	0.315	-1.522
GP02	-0.512	-0.898
GP0c	-0.01	0.27
NOD	0.304	0.516
NZO	0.052	-0.224
PWK	-1.276	-0.487
H37Rv_KO_CtpC	-0.945	0.698
H37Rv_KO_CtpD	-0.852	-0.71
H37Rv_KO_Rv1272	0.005	0.476
H37Rv_KO_SugABC	0.799	1.505
H37Rv_KO_MbtN	1.522	0.399
Trans05	0.369	-0.325
macrophage_unactivated	0.473	-0.436
IL1	0.753	-0.457
Rapamycin	0.448	0.74
Tcell	-0.026	0.746
GMCSF	0.087	0.0
IFNab	1.264	0.692
IFNg	-0.559	0.612
IFNg_GMCSF1	-0.013	0.984
Rv1432_day32	2.211	0.073
Rv1565c_day32	0.148	1.264
secA2_input	0.077	-0.454
delta_Rv3594	0.78	0.26
delta_Rv3717	1.355	-0.216
delta_Rv3811	0.806	0.229
delta_Rv0954	0.456	1.689
PonA1	0.212	-0.223
EccD1_KO	-1.289	1.246
EspI_KO	-0.83	0.633
PE35_KO	-0.688	0.648
PPE68_KO	-0.797	0.486
glycerol2	0.586	0.736
lignocerate	1.436	1.136
oleate	0.492	0.469
phosphatidylcholine	0.919	0.958
acetate	0.695	1.589
glucAc	0.655	1.487
Rv0950ko	-0.172	-0.543
Rv1096ko	0.323	0.154
Rv3684ko	-0.534	-1.431
delta_otsA_trehalose	-0.396	-1.061