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 Rv3785/-:

update plot	correlation	link to info on gene
Rv1021/-	(cc=0.4517)	info on Rv1021/-
Rv0220/lipC	(cc=0.4427)	info on Rv0220/lipC
Rv3886c/mycP2	(cc=0.4317)	info on Rv3886c/mycP2
Rv1724c/-	(cc=0.4176)	info on Rv1724c/-
Rv3426/PPE58	(cc=0.4161)	info on Rv3426/PPE58
Rv0989c/grcC2	(cc=0.4148)	info on Rv0989c/grcC2
Rv2665/-	(cc=0.409)	info on Rv2665/-
Rv1418/lprH	(cc=0.4079)	info on Rv1418/lprH
Rv3831/-	(cc=0.4051)	info on Rv3831/-
Rv0072/-	(cc=0.3964)	info on Rv0072/-

Correlation of Rv3785/- with Rv1418/lprH

Normalized LFCs for Rv3785/-:
(description and provenance of datasets)

	Rv3785/-	Rv1418/lprH
Fe_supp_jason_reseq	0.008	-0.534
low_pH_jason_reseq	0.36	-0.478
NO_jason_reseq	-0.816	-0.284
B6_jason_reseq	-0.353	0.122
MHCII_jason_reseq	0.401	0.04
Isoniazid02	-0.33	-0.451
Rifampicin4	-0.579	0.883
Ethambutol3	0.347	-0.659
Meropenem3	0.096	-0.52
Vancomycin16	-0.175	0.387
Rv2680_day32	0.383	-0.721
H37Rv_KO_MarP	0.515	0.84
hypoxia_3wks	-0.786	-0.403
hypoxia_6wks	0.056	-0.161
glycerol	0.344	-0.173
cholesterol	-0.128	-0.01
AJ	0.103	0.134
Bibs02	0.461	-0.156
Bibs02c	-0.74	-0.247
BL6	0.613	0.654
BL6a	0.069	0.565
BXD01	0.094	0.552
BXD010	0.694	0.581
BXD011	0.385	0.602
BXD03	0.548	0.566
BXD04	0.129	0.524
BXD05	0.123	0.86
BXD06	0.513	0.752
BXD07	0.717	1.155
BXD08	0.402	0.666
BXD09	0.482	0.909
CAST	-0.599	0.352
CCcont	0.512	0.066
DS01	0.775	0.315
DS02	0.745	0.682
DS04	0.838	0.382
DS0c	0.256	0.273
GP01	0.814	-0.24
GP02	0.306	-0.603
GP0c	0.265	-0.187
NOD	0.011	0.225
NZO	0.669	0.488
PWK	-0.523	0.56
H37Rv_KO_CtpC	-0.292	-0.291
H37Rv_KO_CtpD	1.364	1.111
H37Rv_KO_Rv1272	0.333	-0.01
H37Rv_KO_SugABC	0.624	0.288
H37Rv_KO_MbtN	0.099	-0.29
Trans05	0.149	0.249
macrophage_unactivated	-0.088	0.669
IL1	0.053	0.442
Rapamycin	-0.086	0.651
Tcell	-0.622	-0.648
GMCSF	0.716	0.018
IFNab	-0.142	-0.109
IFNg	-0.037	0.329
IFNg_GMCSF1	1.027	0.666
Rv1432_day32	0.171	1.027
Rv1565c_day32	0.185	0.771
secA2_input	-0.158	-0.559
delta_Rv3594	-0.263	-0.069
delta_Rv3717	-0.408	0.274
delta_Rv3811	-0.256	0.228
delta_Rv0954	-0.463	0.093
PonA1	0.477	1.154
EccD1_KO	-0.421	0.194
EspI_KO	-0.513	-0.106
PE35_KO	-0.088	-1.129
PPE68_KO	-0.058	-0.534
glycerol2	0.245	0.185
lignocerate	0.191	-0.279
oleate	0.055	0.526
phosphatidylcholine	0.046	0.343
acetate	0.14	-0.416
glucAc	-0.122	-0.49
Rv0950ko	0.905	0.434
Rv1096ko	0.223	0.863
Rv3684ko	-0.305	0.347
delta_otsA_trehalose	-1.304	-1.113