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 Rv1585c/-

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

	Rv2991/-	Rv1585c/-
Fe_supp_jason_reseq	0.101	1.121
low_pH_jason_reseq	1.258	0.169
NO_jason_reseq	0.2	0.391
B6_jason_reseq	-0.183	-0.723
MHCII_jason_reseq	-1.269	-0.485
Isoniazid02	-0.028	0.131
Rifampicin4	0.152	0.796
Ethambutol3	-0.235	-0.117
Meropenem3	0.11	1.022
Vancomycin16	0.05	0.878
Rv2680_day32	-0.256	0.249
H37Rv_KO_MarP	0.679	0.127
hypoxia_3wks	-0.327	-0.235
hypoxia_6wks	-0.424	-0.526
glycerol	-0.262	-0.809
cholesterol	-0.402	0.193
AJ	1.573	0.983
Bibs02	-0.97	-1.507
Bibs02c	0.032	-0.102
BL6	1.067	0.569
BL6a	-0.28	0.092
BXD01	-0.082	0.278
BXD010	0.471	-0.345
BXD011	0.404	-0.51
BXD03	0.582	1.103
BXD04	-0.327	-0.495
BXD05	1.426	1.934
BXD06	1.383	0.122
BXD07	0.505	-0.138
BXD08	1.122	0.994
BXD09	1.091	-0.216
CAST	0.447	-0.112
CCcont	0.206	0.069
DS01	-0.474	0.683
DS02	0.17	0.629
DS04	-0.252	0.696
DS0c	0.431	-0.333
GP01	-0.051	-0.625
GP02	0.82	-0.393
GP0c	0.213	0.911
NOD	2.182	2.94
NZO	0.579	-1.097
PWK	0.554	0.494
H37Rv_KO_CtpC	0.368	2.372
H37Rv_KO_CtpD	1.816	3.324
H37Rv_KO_Rv1272	0.063	1.597
H37Rv_KO_SugABC	-0.275	1.362
H37Rv_KO_MbtN	-0.342	0.644
Trans05	0.27	0.423
macrophage_unactivated	0.417	2.547
IL1	-0.332	-1.231
Rapamycin	0.559	-0.921
Tcell	-0.808	0.554
GMCSF	0.055	0.0
IFNab	0.063	-1.255
IFNg	0.526	-1.109
IFNg_GMCSF1	1.194	1.012
Rv1432_day32	-0.454	0.0
Rv1565c_day32	2.042	0.455
secA2_input	1.794	-1.077
delta_Rv3594	-0.5	-2.071
delta_Rv3717	-1.112	-1.396
delta_Rv3811	0.167	-1.456
delta_Rv0954	-0.047	-0.677
PonA1	0.379	-0.503
EccD1_KO	0.266	0.125
EspI_KO	-0.445	-1.001
PE35_KO	0.341	-0.117
PPE68_KO	0.339	0.8
glycerol2	0.041	-0.161
lignocerate	1.369	-0.375
oleate	-0.672	0.152
phosphatidylcholine	0.665	0.15
acetate	1.564	0.263
glucAc	1.275	0.485
Rv0950ko	0.247	1.839
Rv1096ko	0.736	0.332
Rv3684ko	0.111	0.904
delta_otsA_trehalose	1.428	0.039