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 Rv2991/-:

update plot	correlation	link to info on gene
Rv2723/-	(cc=0.4636)	info on Rv2723/-
Rv0499/-	(cc=0.4526)	info on Rv0499/-
Rv1874/-	(cc=0.4023)	info on Rv1874/-
Rv3064c/-	(cc=0.3878)	info on Rv3064c/-
Rv1583c/-	(cc=0.38)	info on Rv1583c/-
Rv1524/-	(cc=0.38)	info on Rv1524/-
Rv2775/-	(cc=0.3789)	info on Rv2775/-
Rv1585c/-	(cc=0.3729)	info on Rv1585c/-
Rv1530/adh	(cc=0.3559)	info on Rv1530/adh
Rv0345/-	(cc=0.3489)	info on Rv0345/-

Correlation of Rv2991/- with Rv1583c/-

Normalized LFCs for Rv2991/-:
(description and provenance of datasets)

	Rv2991/-	Rv1583c/-
Fe_supp_jason_reseq	0.101	0.515
low_pH_jason_reseq	1.258	1.549
NO_jason_reseq	0.2	0.832
B6_jason_reseq	-0.183	-2.401
MHCII_jason_reseq	-1.269	-1.772
Isoniazid02	-0.028	0.789
Rifampicin4	0.152	1.18
Ethambutol3	-0.235	0.676
Meropenem3	0.11	-0.246
Vancomycin16	0.05	0.324
Rv2680_day32	-0.256	-1.26
H37Rv_KO_MarP	0.679	0.107
hypoxia_3wks	-0.327	-0.977
hypoxia_6wks	-0.424	0.672
glycerol	-0.262	0.0
cholesterol	-0.402	-0.46
AJ	1.573	-1.071
Bibs02	-0.97	-0.991
Bibs02c	0.032	0.743
BL6	1.067	3.191
BL6a	-0.28	1.936
BXD01	-0.082	1.298
BXD010	0.471	1.592
BXD011	0.404	2.091
BXD03	0.582	2.033
BXD04	-0.327	1.324
BXD05	1.426	1.302
BXD06	1.383	1.925
BXD07	0.505	2.073
BXD08	1.122	1.806
BXD09	1.091	1.625
CAST	0.447	0.736
CCcont	0.206	2.504
DS01	-0.474	0.962
DS02	0.17	0.054
DS04	-0.252	1.612
DS0c	0.431	-1.798
GP01	-0.051	1.857
GP02	0.82	1.808
GP0c	0.213	2.036
NOD	2.182	0.797
NZO	0.579	0.673
PWK	0.554	-0.905
H37Rv_KO_CtpC	0.368	1.404
H37Rv_KO_CtpD	1.816	3.186
H37Rv_KO_Rv1272	0.063	0.795
H37Rv_KO_SugABC	-0.275	1.851
H37Rv_KO_MbtN	-0.342	0.987
Trans05	0.27	1.01
macrophage_unactivated	0.417	0.559
IL1	-0.332	0.0
Rapamycin	0.559	0.862
Tcell	-0.808	0.469
GMCSF	0.055	0.805
IFNab	0.063	-0.115
IFNg	0.526	1.219
IFNg_GMCSF1	1.194	0.537
Rv1432_day32	-0.454	1.454
Rv1565c_day32	2.042	0.526
secA2_input	1.794	-0.227
delta_Rv3594	-0.5	-1.637
delta_Rv3717	-1.112	-0.945
delta_Rv3811	0.167	-0.448
delta_Rv0954	-0.047	-0.472
PonA1	0.379	-0.396
EccD1_KO	0.266	2.088
EspI_KO	-0.445	1.141
PE35_KO	0.341	1.523
PPE68_KO	0.339	1.638
glycerol2	0.041	1.813
lignocerate	1.369	2.527
oleate	-0.672	-2.562
phosphatidylcholine	0.665	1.909
acetate	1.564	2.818
glucAc	1.275	2.145
Rv0950ko	0.247	0.826
Rv1096ko	0.736	-1.197
Rv3684ko	0.111	-1.251
delta_otsA_trehalose	1.428	0.204