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 Rv1754c/-:

update plot	correlation	link to info on gene
Rv2161c/-	(cc=0.4631)	info on Rv2161c/-
Rv1785c/cyp143	(cc=0.4129)	info on Rv1785c/cyp143
Rv0742/PE_PGRS8	(cc=0.4082)	info on Rv0742/PE_PGRS8
Rv2500c/fadE19	(cc=0.408)	info on Rv2500c/fadE19
Rv1584c/-	(cc=0.4066)	info on Rv1584c/-
Rv3160c/-	(cc=0.4003)	info on Rv3160c/-
Rv3826/fadD23	(cc=0.3982)	info on Rv3826/fadD23
Rv3158/nuoN	(cc=0.3958)	info on Rv3158/nuoN
Rv1787/PPE25	(cc=0.385)	info on Rv1787/PPE25
Rv1770/-	(cc=0.3772)	info on Rv1770/-

Correlation of Rv1754c/- with Rv3158/nuoN

Normalized LFCs for Rv1754c/-:
(description and provenance of datasets)

	Rv1754c/-	Rv3158/nuoN
Fe_supp_jason_reseq	0.011	0.182
low_pH_jason_reseq	-0.442	-1.673
NO_jason_reseq	0.055	-1.089
B6_jason_reseq	-0.284	-0.276
MHCII_jason_reseq	-0.283	-0.71
Isoniazid02	0.69	-0.195
Rifampicin4	3.344	0.831
Ethambutol3	0.664	1.696
Meropenem3	-0.374	0.228
Vancomycin16	1.73	0.578
Rv2680_day32	0.183	0.178
H37Rv_KO_MarP	0.212	-0.734
hypoxia_3wks	-0.674	0.0
hypoxia_6wks	-0.207	-0.092
glycerol	0.164	-0.335
cholesterol	0.338	-0.207
AJ	0.378	-0.713
Bibs02	-0.101	0.31
Bibs02c	0.327	0.547
BL6	0.366	1.457
BL6a	0.425	1.745
BXD01	0.856	1.758
BXD010	0.433	1.15
BXD011	1.18	1.387
BXD03	0.443	1.585
BXD04	0.524	2.025
BXD05	0.166	1.625
BXD06	0.286	1.683
BXD07	0.468	1.618
BXD08	0.699	1.957
BXD09	0.134	1.776
CAST	-0.362	-0.329
CCcont	0.497	1.104
DS01	0.226	1.064
DS02	0.145	1.024
DS04	-0.091	1.095
DS0c	0.424	1.68
GP01	0.408	0.83
GP02	1.011	0.429
GP0c	0.426	0.852
NOD	0.454	-0.321
NZO	-0.227	-0.698
PWK	-1.248	-0.602
H37Rv_KO_CtpC	0.654	0.561
H37Rv_KO_CtpD	0.838	1.071
H37Rv_KO_Rv1272	0.794	1.788
H37Rv_KO_SugABC	0.384	1.714
H37Rv_KO_MbtN	0.113	1.169
Trans05	1.442	1.824
macrophage_unactivated	0.376	-0.044
IL1	0.439	-0.172
Rapamycin	0.157	-0.341
Tcell	0.834	0.424
GMCSF	0.187	-0.214
IFNab	0.302	0.547
IFNg	0.369	-0.278
IFNg_GMCSF1	0.192	-0.022
Rv1432_day32	-0.724	0.27
Rv1565c_day32	-1.987	-0.796
secA2_input	-0.553	-0.722
delta_Rv3594	-0.422	0.416
delta_Rv3717	-0.17	0.194
delta_Rv3811	0.0	0.404
delta_Rv0954	0.036	0.541
PonA1	-0.638	0.314
EccD1_KO	0.0	0.293
EspI_KO	-0.145	0.191
PE35_KO	0.341	0.368
PPE68_KO	0.179	0.634
glycerol2	0.196	2.102
lignocerate	0.613	-0.871
oleate	0.179	2.4
phosphatidylcholine	0.521	-0.623
acetate	0.485	0.0
glucAc	0.372	0.605
Rv0950ko	-0.178	0.669
Rv1096ko	-0.489	-0.166
Rv3684ko	-0.043	-0.121
delta_otsA_trehalose	1.21	0.7