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 Rv3426/PPE58

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

	Rv3785/-	Rv3426/PPE58
Fe_supp_jason_reseq	0.008	-0.766
low_pH_jason_reseq	0.36	-0.259
NO_jason_reseq	-0.816	0.226
B6_jason_reseq	-0.353	0.214
MHCII_jason_reseq	0.401	0.6
Isoniazid02	-0.33	-0.146
Rifampicin4	-0.579	-0.558
Ethambutol3	0.347	3.31
Meropenem3	0.096	-0.535
Vancomycin16	-0.175	-0.355
Rv2680_day32	0.383	0.276
H37Rv_KO_MarP	0.515	0.484
hypoxia_3wks	-0.786	0.379
hypoxia_6wks	0.056	-0.157
glycerol	0.344	-0.948
cholesterol	-0.128	-0.066
AJ	0.103	0.861
Bibs02	0.461	-0.457
Bibs02c	-0.74	-1.381
BL6	0.613	-0.462
BL6a	0.069	0.086
BXD01	0.094	0.823
BXD010	0.694	0.533
BXD011	0.385	0.369
BXD03	0.548	0.458
BXD04	0.129	0.054
BXD05	0.123	0.945
BXD06	0.513	0.536
BXD07	0.717	0.637
BXD08	0.402	-0.03
BXD09	0.482	1.094
CAST	-0.599	0.379
CCcont	0.512	-0.213
DS01	0.775	0.103
DS02	0.745	0.047
DS04	0.838	0.319
DS0c	0.256	0.476
GP01	0.814	0.612
GP02	0.306	1.471
GP0c	0.265	0.913
NOD	0.011	0.534
NZO	0.669	0.643
PWK	-0.523	0.5
H37Rv_KO_CtpC	-0.292	-1.213
H37Rv_KO_CtpD	1.364	1.473
H37Rv_KO_Rv1272	0.333	0.091
H37Rv_KO_SugABC	0.624	1.107
H37Rv_KO_MbtN	0.099	-0.096
Trans05	0.149	-0.402
macrophage_unactivated	-0.088	0.783
IL1	0.053	-0.374
Rapamycin	-0.086	0.267
Tcell	-0.622	0.283
GMCSF	0.716	-0.333
IFNab	-0.142	-0.091
IFNg	-0.037	0.593
IFNg_GMCSF1	1.027	3.142
Rv1432_day32	0.171	0.763
Rv1565c_day32	0.185	-0.218
secA2_input	-0.158	-0.77
delta_Rv3594	-0.263	-0.493
delta_Rv3717	-0.408	-0.927
delta_Rv3811	-0.256	-0.178
delta_Rv0954	-0.463	-1.292
PonA1	0.477	0.358
EccD1_KO	-0.421	-1.365
EspI_KO	-0.513	-0.776
PE35_KO	-0.088	-0.639
PPE68_KO	-0.058	-1.139
glycerol2	0.245	-0.545
lignocerate	0.191	-0.947
oleate	0.055	0.111
phosphatidylcholine	0.046	-0.115
acetate	0.14	-0.874
glucAc	-0.122	-1.209
Rv0950ko	0.905	0.081
Rv1096ko	0.223	-0.826
Rv3684ko	-0.305	0.088
delta_otsA_trehalose	-1.304	-0.142