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 Rv3714c/-

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

	Rv0592/mce2D	Rv3714c/-
Fe_supp_jason_reseq	0.622	-0.398
low_pH_jason_reseq	-0.049	-0.363
NO_jason_reseq	0.144	0.011
B6_jason_reseq	0.552	0.719
MHCII_jason_reseq	0.342	1.035
Isoniazid02	0.06	0.778
Rifampicin4	-0.68	-0.011
Ethambutol3	-0.43	0.55
Meropenem3	0.497	-0.108
Vancomycin16	0.109	1.387
Rv2680_day32	-0.357	0.488
H37Rv_KO_MarP	-0.135	0.169
hypoxia_3wks	-0.124	0.49
hypoxia_6wks	0.217	1.184
glycerol	-0.298	-1.508
cholesterol	-0.358	-0.909
AJ	0.299	0.202
Bibs02	0.323	-0.147
Bibs02c	0.488	0.108
BL6	0.835	-0.168
BL6a	0.08	-0.013
BXD01	0.599	0.43
BXD010	0.212	0.139
BXD011	-0.054	0.21
BXD03	0.56	0.323
BXD04	0.261	0.597
BXD05	0.072	-0.14
BXD06	-0.134	0.267
BXD07	0.127	0.08
BXD08	0.171	0.297
BXD09	-0.142	0.279
CAST	0.889	0.607
CCcont	-0.173	-0.643
DS01	0.577	0.433
DS02	0.227	0.651
DS04	0.943	1.023
DS0c	0.732	0.638
GP01	0.521	-0.144
GP02	0.055	0.641
GP0c	-0.255	-0.46
NOD	0.473	1.111
NZO	0.257	0.526
PWK	0.347	0.367
H37Rv_KO_CtpC	0.517	-0.288
H37Rv_KO_CtpD	0.525	0.055
H37Rv_KO_Rv1272	-0.122	-1.053
H37Rv_KO_SugABC	-1.55	-0.819
H37Rv_KO_MbtN	-0.273	-0.526
Trans05	-0.716	-0.625
macrophage_unactivated	0.48	0.095
IL1	-0.122	0.0
Rapamycin	0.239	-0.19
Tcell	0.375	0.935
GMCSF	0.401	0.079
IFNab	-0.06	-0.333
IFNg	0.259	-0.029
IFNg_GMCSF1	0.126	-0.072
Rv1432_day32	1.352	1.288
Rv1565c_day32	0.377	0.158
secA2_input	-0.081	0.769
delta_Rv3594	0.121	-0.971
delta_Rv3717	-0.247	-0.799
delta_Rv3811	-0.223	-1.387
delta_Rv0954	-0.654	-1.0
PonA1	0.069	-0.336
EccD1_KO	-0.664	-0.697
EspI_KO	-0.359	-0.371
PE35_KO	-0.89	-0.446
PPE68_KO	-0.586	-0.403
glycerol2	-0.021	-0.661
lignocerate	-0.253	-0.621
oleate	-0.223	-0.793
phosphatidylcholine	-0.085	-0.793
acetate	-0.374	-1.614
glucAc	-0.529	-0.741
Rv0950ko	0.89	0.724
Rv1096ko	0.983	0.552
Rv3684ko	-0.193	0.196
delta_otsA_trehalose	3.282	0.411