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 Rv1785c/cyp143

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

	Rv1754c/-	Rv1785c/cyp143
Fe_supp_jason_reseq	0.011	-1.061
low_pH_jason_reseq	-0.442	0.375
NO_jason_reseq	0.055	-0.47
B6_jason_reseq	-0.284	-1.819
MHCII_jason_reseq	-0.283	-1.7
Isoniazid02	0.69	2.343
Rifampicin4	3.344	0.276
Ethambutol3	0.664	3.134
Meropenem3	-0.374	0.55
Vancomycin16	1.73	0.854
Rv2680_day32	0.183	1.493
H37Rv_KO_MarP	0.212	-0.233
hypoxia_3wks	-0.674	0.148
hypoxia_6wks	-0.207	0.332
glycerol	0.164	-0.32
cholesterol	0.338	-1.07
AJ	0.378	-0.664
Bibs02	-0.101	-0.67
Bibs02c	0.327	0.368
BL6	0.366	0.31
BL6a	0.425	-0.491
BXD01	0.856	0.038
BXD010	0.433	0.485
BXD011	1.18	0.753
BXD03	0.443	0.706
BXD04	0.524	-0.196
BXD05	0.166	0.59
BXD06	0.286	-0.282
BXD07	0.468	0.226
BXD08	0.699	0.094
BXD09	0.134	-0.153
CAST	-0.362	-0.704
CCcont	0.497	0.753
DS01	0.226	-0.034
DS02	0.145	0.354
DS04	-0.091	0.292
DS0c	0.424	-0.663
GP01	0.408	0.701
GP02	1.011	0.979
GP0c	0.426	0.853
NOD	0.454	-1.66
NZO	-0.227	-0.494
PWK	-1.248	-0.719
H37Rv_KO_CtpC	0.654	1.472
H37Rv_KO_CtpD	0.838	-0.038
H37Rv_KO_Rv1272	0.794	1.278
H37Rv_KO_SugABC	0.384	0.453
H37Rv_KO_MbtN	0.113	0.461
Trans05	1.442	1.2
macrophage_unactivated	0.376	0.369
IL1	0.439	0.178
Rapamycin	0.157	0.184
Tcell	0.834	0.049
GMCSF	0.187	0.454
IFNab	0.302	0.091
IFNg	0.369	0.385
IFNg_GMCSF1	0.192	0.946
Rv1432_day32	-0.724	-0.37
Rv1565c_day32	-1.987	-1.101
secA2_input	-0.553	-0.022
delta_Rv3594	-0.422	-0.3
delta_Rv3717	-0.17	-1.0
delta_Rv3811	0.0	0.32
delta_Rv0954	0.036	-1.23
PonA1	-0.638	-0.309
EccD1_KO	0.0	0.615
EspI_KO	-0.145	0.533
PE35_KO	0.341	0.776
PPE68_KO	0.179	0.768
glycerol2	0.196	-0.104
lignocerate	0.613	0.198
oleate	0.179	-0.561
phosphatidylcholine	0.521	0.06
acetate	0.485	0.973
glucAc	0.372	0.284
Rv0950ko	-0.178	-0.1
Rv1096ko	-0.489	-1.062
Rv3684ko	-0.043	-1.064
delta_otsA_trehalose	1.21	0.701