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 Rv1596/nadC:

update plot	correlation	link to info on gene
Rv2674/msrB	(cc=0.5426)	info on Rv2674/msrB
Rv2063/mazE7	(cc=0.4251)	info on Rv2063/mazE7
Rv1234/-	(cc=0.3857)	info on Rv1234/-
Rv1919c/-	(cc=0.3831)	info on Rv1919c/-
Rv1809/PPE33	(cc=0.381)	info on Rv1809/PPE33
Rv1106c/-	(cc=0.3809)	info on Rv1106c/-
Rv2389c/rpfD	(cc=0.3771)	info on Rv2389c/rpfD
Rv0712/-	(cc=0.375)	info on Rv0712/-
Rv3702c/-	(cc=0.3734)	info on Rv3702c/-
Rv3040c/-	(cc=0.3728)	info on Rv3040c/-

Correlation of Rv1596/nadC with Rv2674/msrB

Normalized LFCs for Rv1596/nadC:
(description and provenance of datasets)

	Rv1596/nadC	Rv2674/msrB
Fe_supp_jason_reseq	0.83	-0.076
low_pH_jason_reseq	-0.422	-1.178
NO_jason_reseq	-0.845	0.121
B6_jason_reseq	-0.526	-1.342
MHCII_jason_reseq	-1.292	-1.309
Isoniazid02	0.356	0.064
Rifampicin4	-0.146	-0.823
Ethambutol3	-0.135	-0.305
Meropenem3	1.622	1.751
Vancomycin16	-0.294	-0.143
Rv2680_day32	-0.33	0.601
H37Rv_KO_MarP	0.104	-0.834
hypoxia_3wks	-0.215	0.463
hypoxia_6wks	-0.113	0.284
glycerol	-0.415	0.061
cholesterol	-0.755	0.424
AJ	-0.815	-0.365
Bibs02	1.933	0.109
Bibs02c	-0.162	-0.694
BL6	0.175	-0.164
BL6a	0.143	0.713
BXD01	-0.049	0.169
BXD010	-0.099	0.095
BXD011	0.371	0.857
BXD03	-0.705	0.641
BXD04	-0.992	0.152
BXD05	1.347	0.563
BXD06	0.271	0.579
BXD07	0.587	0.722
BXD08	0.0	0.458
BXD09	-0.648	0.436
CAST	0.085	0.267
CCcont	0.055	0.402
DS01	1.278	0.323
DS02	0.633	0.52
DS04	-0.682	0.416
DS0c	0.0	0.841
GP01	1.324	-0.228
GP02	-0.098	-0.429
GP0c	2.637	1.396
NOD	-0.675	0.0
NZO	0.0	-0.423
PWK	0.072	0.117
H37Rv_KO_CtpC	-0.571	0.522
H37Rv_KO_CtpD	-1.237	-1.524
H37Rv_KO_Rv1272	0.941	0.501
H37Rv_KO_SugABC	0.316	0.892
H37Rv_KO_MbtN	0.24	0.538
Trans05	0.139	0.752
macrophage_unactivated	0.609	0.527
IL1	0.151	0.199
Rapamycin	2.292	1.126
Tcell	0.479	0.912
GMCSF	0.626	0.319
IFNab	2.165	1.243
IFNg	1.179	0.029
IFNg_GMCSF1	-0.163	0.622
Rv1432_day32	-0.591	1.055
Rv1565c_day32	0.063	-0.294
secA2_input	-0.348	-0.977
delta_Rv3594	-0.402	0.344
delta_Rv3717	-1.258	-0.323
delta_Rv3811	0.051	-0.269
delta_Rv0954	0.087	0.58
PonA1	-0.04	-0.057
EccD1_KO	1.095	1.529
EspI_KO	1.914	2.096
PE35_KO	0.846	0.63
PPE68_KO	1.577	1.2
glycerol2	-0.398	0.221
lignocerate	-0.591	-0.194
oleate	0.57	0.023
phosphatidylcholine	-0.228	0.129
acetate	0.244	-0.279
glucAc	-0.429	-0.501
Rv0950ko	1.61	-0.127
Rv1096ko	0.29	-0.528
Rv3684ko	0.16	-0.773
delta_otsA_trehalose	1.205	0.698