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 Rv1051c/-:

update plot	correlation	link to info on gene
Rv0971c/echA7	(cc=0.5574)	info on Rv0971c/echA7
Rv2390c/-	(cc=0.5491)	info on Rv2390c/-
Rv3143/-	(cc=0.5345)	info on Rv3143/-
Rv1020/mfd	(cc=0.5284)	info on Rv1020/mfd
Rv1751/-	(cc=0.5149)	info on Rv1751/-
Rv3147/nuoC	(cc=0.5134)	info on Rv3147/nuoC
Rv3176c/mesT	(cc=0.4928)	info on Rv3176c/mesT
Rv0495c/-	(cc=0.4858)	info on Rv0495c/-
Rv0698/-	(cc=0.4857)	info on Rv0698/-
Rv0310c/-	(cc=0.4809)	info on Rv0310c/-

Correlation of Rv1051c/- with Rv0310c/-

Normalized LFCs for Rv1051c/-:
(description and provenance of datasets)

	Rv1051c/-	Rv0310c/-
Fe_supp_jason_reseq	-1.045	-1.298
low_pH_jason_reseq	-0.857	1.201
NO_jason_reseq	0.488	-0.593
B6_jason_reseq	-2.276	-1.845
MHCII_jason_reseq	-2.004	-2.111
Isoniazid02	-0.297	0.24
Rifampicin4	0.249	-0.374
Ethambutol3	-0.474	0.153
Meropenem3	0.152	0.417
Vancomycin16	0.244	0.334
Rv2680_day32	2.224	-0.725
H37Rv_KO_MarP	-0.343	0.299
hypoxia_3wks	-0.096	-0.072
hypoxia_6wks	0.098	-0.234
glycerol	-0.291	-0.363
cholesterol	0.14	-0.827
AJ	-0.334	-1.324
Bibs02	1.386	-0.103
Bibs02c	-1.314	-0.309
BL6	2.642	0.99
BL6a	1.07	1.205
BXD01	1.147	0.944
BXD010	1.607	1.882
BXD011	1.404	1.103
BXD03	1.358	1.219
BXD04	1.853	1.775
BXD05	0.929	1.274
BXD06	2.123	1.581
BXD07	1.959	1.499
BXD08	1.557	1.331
BXD09	2.161	1.314
CAST	-0.938	-0.569
CCcont	1.42	1.102
DS01	1.547	-0.755
DS02	-0.885	-1.349
DS04	4.721	0.202
DS0c	-0.074	1.035
GP01	1.156	0.079
GP02	1.7	1.255
GP0c	1.958	-0.036
NOD	-1.276	-0.478
NZO	0.682	-0.712
PWK	0.249	0.72
H37Rv_KO_CtpC	0.973	0.597
H37Rv_KO_CtpD	-0.516	-0.664
H37Rv_KO_Rv1272	1.2	1.169
H37Rv_KO_SugABC	1.843	0.916
H37Rv_KO_MbtN	-0.527	-0.866
Trans05	0.509	0.0
macrophage_unactivated	0.215	-0.508
IL1	0.575	-0.424
Rapamycin	0.954	0.491
Tcell	0.671	0.215
GMCSF	-1.001	-0.09
IFNab	0.323	0.532
IFNg	0.74	0.74
IFNg_GMCSF1	-0.179	0.053
Rv1432_day32	0.18	0.0
Rv1565c_day32	-0.747	-1.905
secA2_input	-0.318	-0.482
delta_Rv3594	0.119	-1.205
delta_Rv3717	-0.457	0.593
delta_Rv3811	-1.157	0.617
delta_Rv0954	0.243	-0.399
PonA1	1.767	1.212
EccD1_KO	-1.194	0.398
EspI_KO	-0.616	0.904
PE35_KO	-0.767	1.21
PPE68_KO	-1.683	0.745
glycerol2	0.68	0.254
lignocerate	1.987	0.608
oleate	-1.71	-0.142
phosphatidylcholine	1.367	0.346
acetate	2.608	0.155
glucAc	1.964	0.713
Rv0950ko	0.552	-0.513
Rv1096ko	2.247	0.817
Rv3684ko	0.0	0.291
delta_otsA_trehalose	0.02	1.405