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 Rv1553/frdB:

update plot	correlation	link to info on gene
Rv1970/lprM	(cc=0.4996)	info on Rv1970/lprM
Rv1148c/-	(cc=0.44)	info on Rv1148c/-
Rv0724A/-	(cc=0.4359)	info on Rv0724A/-
Rv1036c/-	(cc=0.4079)	info on Rv1036c/-
Rv3093c/-	(cc=0.405)	info on Rv3093c/-
Rv1916/aceAb	(cc=0.4048)	info on Rv1916/aceAb
Rv0837c/-	(cc=0.4035)	info on Rv0837c/-
Rv2436/rbsK	(cc=0.3938)	info on Rv2436/rbsK
Rv1902c/nanT	(cc=0.3909)	info on Rv1902c/nanT
Rv1733c/-	(cc=0.3877)	info on Rv1733c/-

Correlation of Rv1553/frdB with Rv2436/rbsK

Normalized LFCs for Rv1553/frdB:
(description and provenance of datasets)

	Rv1553/frdB	Rv2436/rbsK
Fe_supp_jason_reseq	-1.187	0.458
low_pH_jason_reseq	-0.674	0.636
NO_jason_reseq	-0.32	0.344
B6_jason_reseq	0.0	-0.727
MHCII_jason_reseq	0.022	-1.484
Isoniazid02	-0.842	-0.838
Rifampicin4	-0.176	0.72
Ethambutol3	-0.642	-1.026
Meropenem3	-0.398	-0.564
Vancomycin16	-0.565	-0.745
Rv2680_day32	0.909	1.263
H37Rv_KO_MarP	-0.126	0.095
hypoxia_3wks	0.072	0.0
hypoxia_6wks	-0.998	-1.723
glycerol	-0.142	-0.394
cholesterol	0.069	0.897
AJ	-0.118	0.425
Bibs02	0.212	0.868
Bibs02c	1.369	1.716
BL6	-1.257	-0.179
BL6a	0.011	0.672
BXD01	-0.334	0.523
BXD010	0.069	-0.15
BXD011	-0.114	0.028
BXD03	-0.435	0.321
BXD04	1.278	-0.028
BXD05	0.057	0.247
BXD06	0.102	0.193
BXD07	-0.48	0.823
BXD08	0.485	0.756
BXD09	-0.254	-0.71
CAST	-0.302	-0.105
CCcont	-0.797	1.24
DS01	-0.643	0.296
DS02	-0.441	0.807
DS04	0.831	0.319
DS0c	0.288	1.948
GP01	-0.668	-1.498
GP02	-0.133	0.621
GP0c	-1.167	-0.971
NOD	-0.838	0.0
NZO	-0.049	-0.936
PWK	-0.384	-0.604
H37Rv_KO_CtpC	0.453	1.727
H37Rv_KO_CtpD	0.531	1.357
H37Rv_KO_Rv1272	0.766	1.778
H37Rv_KO_SugABC	0.738	0.484
H37Rv_KO_MbtN	-0.039	0.366
Trans05	0.762	2.226
macrophage_unactivated	-0.082	1.521
IL1	-0.392	1.13
Rapamycin	-0.491	0.322
Tcell	-0.042	0.736
GMCSF	0.499	2.141
IFNab	0.296	0.955
IFNg	-0.826	0.142
IFNg_GMCSF1	0.666	0.562
Rv1432_day32	-0.465	0.0
Rv1565c_day32	0.106	0.294
secA2_input	-0.538	-1.924
delta_Rv3594	0.967	0.525
delta_Rv3717	1.146	-0.391
delta_Rv3811	0.461	0.433
delta_Rv0954	0.956	-1.914
PonA1	0.384	-0.627
EccD1_KO	0.388	1.388
EspI_KO	0.847	1.614
PE35_KO	0.89	1.873
PPE68_KO	0.928	1.747
glycerol2	0.283	0.96
lignocerate	0.079	0.856
oleate	0.771	0.0
phosphatidylcholine	0.65	0.696
acetate	0.376	1.139
glucAc	-0.35	0.762
Rv0950ko	0.208	-0.736
Rv1096ko	-0.419	-0.875
Rv3684ko	-0.21	-0.187
delta_otsA_trehalose	0.137	-2.417