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 Rv3839/-

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

	Rv0592/mce2D	Rv3839/-
Fe_supp_jason_reseq	0.622	0.472
low_pH_jason_reseq	-0.049	0.549
NO_jason_reseq	0.144	-2.263
B6_jason_reseq	0.552	1.347
MHCII_jason_reseq	0.342	0.609
Isoniazid02	0.06	-0.3
Rifampicin4	-0.68	-0.663
Ethambutol3	-0.43	-0.111
Meropenem3	0.497	-0.047
Vancomycin16	0.109	-0.302
Rv2680_day32	-0.357	1.935
H37Rv_KO_MarP	-0.135	-0.087
hypoxia_3wks	-0.124	0.845
hypoxia_6wks	0.217	0.731
glycerol	-0.298	0.508
cholesterol	-0.358	-0.179
AJ	0.299	1.933
Bibs02	0.323	-0.517
Bibs02c	0.488	0.465
BL6	0.835	0.526
BL6a	0.08	0.703
BXD01	0.599	0.967
BXD010	0.212	0.4
BXD011	-0.054	0.465
BXD03	0.56	1.4
BXD04	0.261	0.555
BXD05	0.072	0.772
BXD06	-0.134	0.561
BXD07	0.127	0.759
BXD08	0.171	0.434
BXD09	-0.142	0.749
CAST	0.889	1.71
CCcont	-0.173	-0.415
DS01	0.577	0.922
DS02	0.227	0.914
DS04	0.943	1.138
DS0c	0.732	0.943
GP01	0.521	0.099
GP02	0.055	-0.391
GP0c	-0.255	-0.271
NOD	0.473	3.022
NZO	0.257	1.585
PWK	0.347	0.354
H37Rv_KO_CtpC	0.517	0.459
H37Rv_KO_CtpD	0.525	0.644
H37Rv_KO_Rv1272	-0.122	0.448
H37Rv_KO_SugABC	-1.55	0.955
H37Rv_KO_MbtN	-0.273	0.685
Trans05	-0.716	0.949
macrophage_unactivated	0.48	0.23
IL1	-0.122	-0.697
Rapamycin	0.239	-0.104
Tcell	0.375	-0.274
GMCSF	0.401	0.359
IFNab	-0.06	1.034
IFNg	0.259	-0.649
IFNg_GMCSF1	0.126	0.0
Rv1432_day32	1.352	1.249
Rv1565c_day32	0.377	2.35
secA2_input	-0.081	1.371
delta_Rv3594	0.121	-0.109
delta_Rv3717	-0.247	-0.179
delta_Rv3811	-0.223	-0.086
delta_Rv0954	-0.654	-0.063
PonA1	0.069	-0.082
EccD1_KO	-0.664	-0.227
EspI_KO	-0.359	-0.924
PE35_KO	-0.89	-0.945
PPE68_KO	-0.586	-1.081
glycerol2	-0.021	-0.073
lignocerate	-0.253	-0.589
oleate	-0.223	0.062
phosphatidylcholine	-0.085	-0.265
acetate	-0.374	-0.593
glucAc	-0.529	-0.528
Rv0950ko	0.89	1.677
Rv1096ko	0.983	1.101
Rv3684ko	-0.193	1.808
delta_otsA_trehalose	3.282	6.0