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 Rv0345/-

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

	Rv2991/-	Rv0345/-
Fe_supp_jason_reseq	0.101	-1.162
low_pH_jason_reseq	1.258	0.11
NO_jason_reseq	0.2	-0.333
B6_jason_reseq	-0.183	-0.629
MHCII_jason_reseq	-1.269	-0.894
Isoniazid02	-0.028	-0.079
Rifampicin4	0.152	0.393
Ethambutol3	-0.235	-0.134
Meropenem3	0.11	-2.078
Vancomycin16	0.05	-0.366
Rv2680_day32	-0.256	0.0
H37Rv_KO_MarP	0.679	0.56
hypoxia_3wks	-0.327	-0.379
hypoxia_6wks	-0.424	0.058
glycerol	-0.262	-0.822
cholesterol	-0.402	-0.168
AJ	1.573	0.435
Bibs02	-0.97	-0.899
Bibs02c	0.032	-1.194
BL6	1.067	0.936
BL6a	-0.28	-0.214
BXD01	-0.082	0.547
BXD010	0.471	0.72
BXD011	0.404	0.438
BXD03	0.582	0.651
BXD04	-0.327	0.676
BXD05	1.426	0.077
BXD06	1.383	0.58
BXD07	0.505	0.882
BXD08	1.122	0.024
BXD09	1.091	0.188
CAST	0.447	-0.017
CCcont	0.206	0.624
DS01	-0.474	-0.255
DS02	0.17	-0.599
DS04	-0.252	-0.409
DS0c	0.431	-0.244
GP01	-0.051	-0.429
GP02	0.82	-0.955
GP0c	0.213	-0.178
NOD	2.182	0.737
NZO	0.579	0.249
PWK	0.554	1.034
H37Rv_KO_CtpC	0.368	-0.828
H37Rv_KO_CtpD	1.816	-1.374
H37Rv_KO_Rv1272	0.063	0.34
H37Rv_KO_SugABC	-0.275	-0.837
H37Rv_KO_MbtN	-0.342	-1.812
Trans05	0.27	0.136
macrophage_unactivated	0.417	-0.644
IL1	-0.332	0.059
Rapamycin	0.559	0.242
Tcell	-0.808	0.091
GMCSF	0.055	0.628
IFNab	0.063	0.036
IFNg	0.526	0.107
IFNg_GMCSF1	1.194	0.377
Rv1432_day32	-0.454	0.781
Rv1565c_day32	2.042	-0.152
secA2_input	1.794	0.681
delta_Rv3594	-0.5	-0.584
delta_Rv3717	-1.112	-1.12
delta_Rv3811	0.167	0.205
delta_Rv0954	-0.047	-0.346
PonA1	0.379	1.202
EccD1_KO	0.266	0.145
EspI_KO	-0.445	-0.339
PE35_KO	0.341	-1.438
PPE68_KO	0.339	-1.549
glycerol2	0.041	0.653
lignocerate	1.369	1.209
oleate	-0.672	-0.271
phosphatidylcholine	0.665	0.798
acetate	1.564	1.086
glucAc	1.275	0.605
Rv0950ko	0.247	-0.244
Rv1096ko	0.736	0.404
Rv3684ko	0.111	0.17
delta_otsA_trehalose	1.428	-0.657