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 Rv0854/-:

update plot	correlation	link to info on gene
Rv3198A/-	(cc=0.5392)	info on Rv3198A/-
Rv3172c/-	(cc=0.468)	info on Rv3172c/-
Rv2078/-	(cc=0.4602)	info on Rv2078/-
Rv3747/-	(cc=0.4517)	info on Rv3747/-
Rv2127/ansP1	(cc=0.4333)	info on Rv2127/ansP1
Rv3510c/-	(cc=0.4218)	info on Rv3510c/-
Rv0261c/narK3	(cc=0.413)	info on Rv0261c/narK3
Rv2142c/parE2	(cc=0.4099)	info on Rv2142c/parE2
Rv1814/erg3	(cc=0.4061)	info on Rv1814/erg3
Rv0323c/-	(cc=0.3991)	info on Rv0323c/-

Correlation of Rv0854/- with Rv0323c/-

Normalized LFCs for Rv0854/-:
(description and provenance of datasets)

	Rv0854/-	Rv0323c/-
Fe_supp_jason_reseq	-0.148	-1.607
low_pH_jason_reseq	-1.129	-0.487
NO_jason_reseq	-1.034	-0.441
B6_jason_reseq	-0.1	-1.211
MHCII_jason_reseq	-0.222	-0.628
Isoniazid02	1.314	0.694
Rifampicin4	-0.872	-1.026
Ethambutol3	0.925	0.866
Meropenem3	-0.44	-0.734
Vancomycin16	-0.151	-0.212
Rv2680_day32	0.94	1.477
H37Rv_KO_MarP	-0.154	0.268
hypoxia_3wks	0.148	-0.399
hypoxia_6wks	0.134	0.326
glycerol	-1.821	0.111
cholesterol	-0.795	0.095
AJ	-0.087	-0.768
Bibs02	0.833	0.997
Bibs02c	-0.449	-0.629
BL6	0.876	1.152
BL6a	-0.08	0.274
BXD01	0.588	0.18
BXD010	0.098	0.732
BXD011	0.27	0.77
BXD03	-0.313	0.613
BXD04	0.449	0.108
BXD05	0.202	0.074
BXD06	0.025	0.311
BXD07	0.194	0.523
BXD08	-0.087	0.481
BXD09	-0.204	1.14
CAST	-0.167	-0.367
CCcont	0.136	0.873
DS01	0.625	0.104
DS02	0.299	0.66
DS04	-0.596	-0.833
DS0c	-0.415	-0.346
GP01	0.574	1.82
GP02	-1.037	-0.237
GP0c	-0.154	0.971
NOD	0.586	0.148
NZO	-0.468	0.11
PWK	-0.142	-0.946
H37Rv_KO_CtpC	-0.019	-0.393
H37Rv_KO_CtpD	-0.194	-1.894
H37Rv_KO_Rv1272	-0.682	-0.134
H37Rv_KO_SugABC	0.585	0.249
H37Rv_KO_MbtN	0.588	-1.591
Trans05	0.097	-0.917
macrophage_unactivated	0.483	0.18
IL1	-0.294	0.605
Rapamycin	0.135	0.838
Tcell	0.446	0.362
GMCSF	-0.726	-0.187
IFNab	0.121	0.399
IFNg	0.374	1.406
IFNg_GMCSF1	-0.129	-0.072
Rv1432_day32	0.645	0.269
Rv1565c_day32	0.521	0.479
secA2_input	0.551	-1.043
delta_Rv3594	0.043	-0.483
delta_Rv3717	0.137	-0.527
delta_Rv3811	-0.929	-0.578
delta_Rv0954	-0.664	0.155
PonA1	-0.106	0.197
EccD1_KO	-0.342	0.118
EspI_KO	-0.599	0.297
PE35_KO	0.082	-0.642
PPE68_KO	0.134	-0.403
glycerol2	1.454	1.058
lignocerate	1.069	1.085
oleate	0.59	0.352
phosphatidylcholine	1.225	0.748
acetate	0.367	0.238
glucAc	0.481	0.358
Rv0950ko	1.004	0.582
Rv1096ko	0.636	0.359
Rv3684ko	-0.665	0.046
delta_otsA_trehalose	0.135	3.156