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 Rv0220/lipC

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

	Rv3785/-	Rv0220/lipC
Fe_supp_jason_reseq	0.008	-0.172
low_pH_jason_reseq	0.36	-0.564
NO_jason_reseq	-0.816	-0.551
B6_jason_reseq	-0.353	-0.6
MHCII_jason_reseq	0.401	-0.075
Isoniazid02	-0.33	0.143
Rifampicin4	-0.579	-0.596
Ethambutol3	0.347	0.452
Meropenem3	0.096	0.041
Vancomycin16	-0.175	-0.329
Rv2680_day32	0.383	-0.125
H37Rv_KO_MarP	0.515	0.301
hypoxia_3wks	-0.786	0.195
hypoxia_6wks	0.056	-0.106
glycerol	0.344	0.65
cholesterol	-0.128	0.142
AJ	0.103	0.155
Bibs02	0.461	1.02
Bibs02c	-0.74	-0.815
BL6	0.613	0.304
BL6a	0.069	-0.069
BXD01	0.094	0.022
BXD010	0.694	0.506
BXD011	0.385	0.472
BXD03	0.548	1.002
BXD04	0.129	0.896
BXD05	0.123	1.107
BXD06	0.513	0.131
BXD07	0.717	0.579
BXD08	0.402	0.445
BXD09	0.482	0.435
CAST	-0.599	0.592
CCcont	0.512	-0.279
DS01	0.775	0.51
DS02	0.745	0.247
DS04	0.838	0.419
DS0c	0.256	0.179
GP01	0.814	1.623
GP02	0.306	1.416
GP0c	0.265	0.602
NOD	0.011	0.454
NZO	0.669	-0.254
PWK	-0.523	0.311
H37Rv_KO_CtpC	-0.292	-0.086
H37Rv_KO_CtpD	1.364	0.939
H37Rv_KO_Rv1272	0.333	0.683
H37Rv_KO_SugABC	0.624	0.814
H37Rv_KO_MbtN	0.099	-0.376
Trans05	0.149	-0.576
macrophage_unactivated	-0.088	0.922
IL1	0.053	0.142
Rapamycin	-0.086	-0.203
Tcell	-0.622	-0.052
GMCSF	0.716	0.842
IFNab	-0.142	0.638
IFNg	-0.037	0.331
IFNg_GMCSF1	1.027	0.663
Rv1432_day32	0.171	0.0
Rv1565c_day32	0.185	-0.823
secA2_input	-0.158	-0.817
delta_Rv3594	-0.263	-0.242
delta_Rv3717	-0.408	-0.307
delta_Rv3811	-0.256	-0.299
delta_Rv0954	-0.463	0.227
PonA1	0.477	0.084
EccD1_KO	-0.421	-0.628
EspI_KO	-0.513	-0.642
PE35_KO	-0.088	-0.362
PPE68_KO	-0.058	-0.889
glycerol2	0.245	0.021
lignocerate	0.191	-0.357
oleate	0.055	0.142
phosphatidylcholine	0.046	-0.172
acetate	0.14	-0.427
glucAc	-0.122	-0.523
Rv0950ko	0.905	-0.314
Rv1096ko	0.223	0.235
Rv3684ko	-0.305	-0.94
delta_otsA_trehalose	-1.304	0.317