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 Rv3162c/-:

update plot	correlation	link to info on gene
Rv0968/-	(cc=0.5573)	info on Rv0968/-
Rv3566c/nat	(cc=0.5406)	info on Rv3566c/nat
Rv2313c/-	(cc=0.5117)	info on Rv2313c/-
Rv2066/cobI	(cc=0.51)	info on Rv2066/cobI
Rv2322c/rocD1	(cc=0.5047)	info on Rv2322c/rocD1
Rv1997/ctpF	(cc=0.4969)	info on Rv1997/ctpF
Rv0342/iniA	(cc=0.4851)	info on Rv0342/iniA
Rv0925c/-	(cc=0.4821)	info on Rv0925c/-
Rv3191c/-	(cc=0.4711)	info on Rv3191c/-
Rv3233c/-	(cc=0.4645)	info on Rv3233c/-

Correlation of Rv3162c/- with Rv2313c/-

Normalized LFCs for Rv3162c/-:
(description and provenance of datasets)

	Rv3162c/-	Rv2313c/-
Fe_supp_jason_reseq	-0.226	0.762
low_pH_jason_reseq	-0.803	-0.261
NO_jason_reseq	-0.971	0.113
B6_jason_reseq	-0.461	1.271
MHCII_jason_reseq	0.937	1.219
Isoniazid02	-3.406	-2.559
Rifampicin4	0.26	0.092
Ethambutol3	-2.873	-2.421
Meropenem3	-1.185	-2.41
Vancomycin16	-1.271	-1.183
Rv2680_day32	1.982	0.218
H37Rv_KO_MarP	0.882	-0.058
hypoxia_3wks	-1.116	0.1
hypoxia_6wks	-2.318	0.04
glycerol	-0.252	0.62
cholesterol	-0.131	0.683
AJ	0.215	0.188
Bibs02	-0.906	-0.67
Bibs02c	0.491	0.241
BL6	-1.419	0.332
BL6a	-0.96	-0.089
BXD01	-1.792	-0.293
BXD010	-2.305	-0.41
BXD011	-0.726	-0.038
BXD03	-1.018	-1.03
BXD04	-1.594	-0.139
BXD05	-2.741	-0.825
BXD06	-1.288	-0.264
BXD07	-0.841	-0.031
BXD08	-0.799	-0.705
BXD09	-0.999	-0.118
CAST	-0.132	0.148
CCcont	-1.124	-0.563
DS01	-0.25	-0.017
DS02	0.153	0.047
DS04	-0.571	-0.384
DS0c	-0.212	0.292
GP01	-0.987	-0.157
GP02	-0.733	-0.841
GP0c	-1.739	0.162
NOD	0.085	-0.465
NZO	-0.689	0.319
PWK	-0.041	0.696
H37Rv_KO_CtpC	-0.348	0.306
H37Rv_KO_CtpD	-0.883	0.314
H37Rv_KO_Rv1272	0.812	0.341
H37Rv_KO_SugABC	0.424	0.312
H37Rv_KO_MbtN	-1.021	0.225
Trans05	0.424	0.197
macrophage_unactivated	-0.442	0.956
IL1	0.475	0.027
Rapamycin	-1.139	0.819
Tcell	-0.544	0.352
GMCSF	-0.37	0.451
IFNab	0.0	0.493
IFNg	-0.233	0.414
IFNg_GMCSF1	1.109	1.103
Rv1432_day32	0.177	0.129
Rv1565c_day32	0.0	0.182
secA2_input	-0.335	-0.1
delta_Rv3594	-1.36	0.457
delta_Rv3717	-0.943	0.0
delta_Rv3811	-1.039	0.4
delta_Rv0954	-2.12	0.0
PonA1	0.204	-0.145
EccD1_KO	0.217	0.207
EspI_KO	-0.707	0.459
PE35_KO	0.263	0.152
PPE68_KO	-0.666	0.237
glycerol2	-0.455	0.563
lignocerate	0.388	0.399
oleate	-1.326	0.851
phosphatidylcholine	-0.115	0.662
acetate	-0.407	-0.502
glucAc	-0.013	-0.111
Rv0950ko	0.992	0.208
Rv1096ko	-0.739	0.377
Rv3684ko	1.307	-0.02
delta_otsA_trehalose	0.445	0.373