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 Rv2832c/ugpC:

update plot	correlation	link to info on gene
Rv2801c/mazF9	(cc=0.4461)	info on Rv2801c/mazF9
Rv2131c/cysQ	(cc=0.4442)	info on Rv2131c/cysQ
Rv0998/-	(cc=0.4407)	info on Rv0998/-
Rv0732/secY	(cc=0.4366)	info on Rv0732/secY
Rv2164c/-	(cc=0.4356)	info on Rv2164c/-
Rv1253/deaD	(cc=0.4272)	info on Rv1253/deaD
Rv1365c/rsfA	(cc=0.4263)	info on Rv1365c/rsfA
Rv2446c/-	(cc=0.4252)	info on Rv2446c/-
Rv1745c/idi	(cc=0.4191)	info on Rv1745c/idi
Rv1421/-	(cc=0.4108)	info on Rv1421/-

Correlation of Rv2832c/ugpC with Rv1365c/rsfA

Normalized LFCs for Rv2832c/ugpC:
(description and provenance of datasets)

	Rv2832c/ugpC	Rv1365c/rsfA
Fe_supp_jason_reseq	-1.304	0.415
low_pH_jason_reseq	0.999	-0.022
NO_jason_reseq	0.625	-1.57
B6_jason_reseq	-0.474	0.269
MHCII_jason_reseq	0.63	-0.315
Isoniazid02	0.124	-0.968
Rifampicin4	-0.504	0.623
Ethambutol3	-0.168	-0.809
Meropenem3	-0.053	-0.996
Vancomycin16	0.114	-0.422
Rv2680_day32	0.0	0.526
H37Rv_KO_MarP	-0.207	0.474
hypoxia_3wks	0.0	0.562
hypoxia_6wks	0.455	0.173
glycerol	1.102	0.492
cholesterol	-0.703	0.559
AJ	0.96	-0.583
Bibs02	0.481	0.546
Bibs02c	1.32	2.099
BL6	1.555	1.781
BL6a	0.61	1.759
BXD01	0.884	0.977
BXD010	0.394	1.214
BXD011	0.626	1.783
BXD03	0.0	0.909
BXD04	0.037	1.551
BXD05	1.215	0.982
BXD06	0.187	1.132
BXD07	0.851	1.649
BXD08	0.467	1.453
BXD09	1.37	1.469
CAST	-1.011	0.522
CCcont	0.393	0.434
DS01	2.132	0.944
DS02	0.246	1.705
DS04	1.726	2.689
DS0c	0.358	0.211
GP01	-0.433	-1.344
GP02	1.414	0.189
GP0c	0.457	-1.286
NOD	-1.199	-0.291
NZO	0.116	-0.449
PWK	0.604	-0.651
H37Rv_KO_CtpC	0.672	0.672
H37Rv_KO_CtpD	-1.213	-0.351
H37Rv_KO_Rv1272	-1.065	-0.183
H37Rv_KO_SugABC	-1.108	-1.06
H37Rv_KO_MbtN	-0.406	0.164
Trans05	-1.461	0.138
macrophage_unactivated	0.237	1.367
IL1	-0.842	0.786
Rapamycin	0.157	0.859
Tcell	-0.085	0.459
GMCSF	0.626	0.987
IFNab	0.302	1.061
IFNg	1.074	0.588
IFNg_GMCSF1	0.314	1.832
Rv1432_day32	0.0	0.591
Rv1565c_day32	2.786	-0.286
secA2_input	1.005	0.221
delta_Rv3594	2.022	0.422
delta_Rv3717	0.901	0.581
delta_Rv3811	0.97	0.714
delta_Rv0954	0.665	0.778
PonA1	1.663	0.779
EccD1_KO	-1.01	0.842
EspI_KO	-3.314	-0.297
PE35_KO	-0.184	0.254
PPE68_KO	-1.232	0.966
glycerol2	-1.488	-1.079
lignocerate	-1.765	-1.143
oleate	-0.522	-0.034
phosphatidylcholine	-0.877	-0.57
acetate	-1.376	-1.44
glucAc	-1.442	-1.679
Rv0950ko	-0.736	-2.035
Rv1096ko	0.0	-0.44
Rv3684ko	-1.464	-0.203
delta_otsA_trehalose	0.181	0.0