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 Rv0592/mce2D:

update plot	correlation	link to info on gene
Rv3839/-	(cc=0.6059)	info on Rv3839/-
Rv0551c/fadD8	(cc=0.5984)	info on Rv0551c/fadD8
Rv0303/-	(cc=0.5553)	info on Rv0303/-
Rv3294c/-	(cc=0.5103)	info on Rv3294c/-
Rv1761c/-	(cc=0.5029)	info on Rv1761c/-
Rv3714c/-	(cc=0.4955)	info on Rv3714c/-
Rv3363c/-	(cc=0.4948)	info on Rv3363c/-
Rv0443/-	(cc=0.4587)	info on Rv0443/-
Rv3532/PPE61	(cc=0.4437)	info on Rv3532/PPE61
Rv1262c/-	(cc=0.4415)	info on Rv1262c/-

Correlation of Rv0592/mce2D with Rv1262c/-

Normalized LFCs for Rv0592/mce2D:
(description and provenance of datasets)

	Rv0592/mce2D	Rv1262c/-
Fe_supp_jason_reseq	0.622	0.391
low_pH_jason_reseq	-0.049	-1.345
NO_jason_reseq	0.144	-0.244
B6_jason_reseq	0.552	1.11
MHCII_jason_reseq	0.342	1.753
Isoniazid02	0.06	-0.162
Rifampicin4	-0.68	-0.428
Ethambutol3	-0.43	-0.457
Meropenem3	0.497	0.062
Vancomycin16	0.109	-0.204
Rv2680_day32	-0.357	-3.429
H37Rv_KO_MarP	-0.135	-0.967
hypoxia_3wks	-0.124	0.0
hypoxia_6wks	0.217	0.683
glycerol	-0.298	0.55
cholesterol	-0.358	0.381
AJ	0.299	0.14
Bibs02	0.323	0.362
Bibs02c	0.488	0.843
BL6	0.835	-0.397
BL6a	0.08	0.155
BXD01	0.599	-0.72
BXD010	0.212	-1.471
BXD011	-0.054	-0.224
BXD03	0.56	-0.678
BXD04	0.261	-0.403
BXD05	0.072	0.678
BXD06	-0.134	-0.505
BXD07	0.127	-0.6
BXD08	0.171	-0.346
BXD09	-0.142	-0.045
CAST	0.889	0.432
CCcont	-0.173	-1.218
DS01	0.577	0.643
DS02	0.227	0.419
DS04	0.943	0.207
DS0c	0.732	1.802
GP01	0.521	1.146
GP02	0.055	-0.292
GP0c	-0.255	0.348
NOD	0.473	-1.44
NZO	0.257	1.195
PWK	0.347	-0.607
H37Rv_KO_CtpC	0.517	-1.414
H37Rv_KO_CtpD	0.525	0.997
H37Rv_KO_Rv1272	-0.122	-1.619
H37Rv_KO_SugABC	-1.55	-2.256
H37Rv_KO_MbtN	-0.273	-1.753
Trans05	-0.716	-0.033
macrophage_unactivated	0.48	-0.663
IL1	-0.122	0.237
Rapamycin	0.239	0.157
Tcell	0.375	-0.349
GMCSF	0.401	-0.137
IFNab	-0.06	1.811
IFNg	0.259	0.083
IFNg_GMCSF1	0.126	-0.132
Rv1432_day32	1.352	0.398
Rv1565c_day32	0.377	0.218
secA2_input	-0.081	-0.817
delta_Rv3594	0.121	-0.2
delta_Rv3717	-0.247	-0.184
delta_Rv3811	-0.223	0.04
delta_Rv0954	-0.654	-1.828
PonA1	0.069	-0.151
EccD1_KO	-0.664	-0.77
EspI_KO	-0.359	0.77
PE35_KO	-0.89	-0.201
PPE68_KO	-0.586	-1.459
glycerol2	-0.021	-0.904
lignocerate	-0.253	0.699
oleate	-0.223	-3.713
phosphatidylcholine	-0.085	-0.727
acetate	-0.374	-0.46
glucAc	-0.529	0.716
Rv0950ko	0.89	1.324
Rv1096ko	0.983	1.876
Rv3684ko	-0.193	1.618
delta_otsA_trehalose	3.282	1.906