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 Rv2908c/-:

update plot	correlation	link to info on gene
Rv0537c/-	(cc=0.5459)	info on Rv0537c/-
Rv0538/-	(cc=0.4889)	info on Rv0538/-
Rv3060c/-	(cc=0.4787)	info on Rv3060c/-
Rv1178/-	(cc=0.4766)	info on Rv1178/-
Rv0062/celA1	(cc=0.4757)	info on Rv0062/celA1
Rv3075c/-	(cc=0.4744)	info on Rv3075c/-
Rv1081c/-	(cc=0.4638)	info on Rv1081c/-
Rv2506/-	(cc=0.4594)	info on Rv2506/-
Rv3067/-	(cc=0.4353)	info on Rv3067/-
Rv2091c/-	(cc=0.433)	info on Rv2091c/-

Correlation of Rv2908c/- with Rv2091c/-

Normalized LFCs for Rv2908c/-:
(description and provenance of datasets)

	Rv2908c/-	Rv2091c/-
Fe_supp_jason_reseq	0.0	1.432
low_pH_jason_reseq	0.0	-0.796
NO_jason_reseq	0.0	-2.625
B6_jason_reseq	0.0	-1.862
MHCII_jason_reseq	0.0	-0.892
Isoniazid02	0.0	-0.109
Rifampicin4	0.374	-3.106
Ethambutol3	2.247	0.674
Meropenem3	0.165	2.1
Vancomycin16	0.0	-0.409
Rv2680_day32	0.0	-2.156
H37Rv_KO_MarP	2.492	5.856
hypoxia_3wks	0.0	-2.373
hypoxia_6wks	0.0	-3.817
glycerol	0.0	0.05
cholesterol	0.145	-0.929
AJ	0.0	-2.266
Bibs02	0.0	-2.134
Bibs02c	0.0	-1.734
BL6	0.0	-3.158
BL6a	0.0	-2.274
BXD01	0.0	-3.592
BXD010	0.0	-3.425
BXD011	0.0	-2.647
BXD03	0.0	-3.323
BXD04	0.0	-3.41
BXD05	0.0	-2.993
BXD06	0.0	-3.57
BXD07	0.0	-3.232
BXD08	0.0	-3.268
BXD09	0.0	-3.548
CAST	0.0	-4.228
CCcont	0.149	-0.365
DS01	0.0	-3.251
DS02	0.217	-1.344
DS04	0.0	-3.123
DS0c	0.0	-4.062
GP01	0.0	-2.813
GP02	0.0	-2.453
GP0c	0.0	-3.282
NOD	0.0	-0.675
NZO	0.199	-3.661
PWK	0.0	-4.362
H37Rv_KO_CtpC	0.0	-0.397
H37Rv_KO_CtpD	0.0	-2.003
H37Rv_KO_Rv1272	0.0	-2.399
H37Rv_KO_SugABC	0.0	-1.783
H37Rv_KO_MbtN	0.0	-1.127
Trans05	0.0	-3.128
macrophage_unactivated	0.0	-0.066
IL1	0.0	0.184
Rapamycin	0.0	0.433
Tcell	0.0	-0.831
GMCSF	0.0	1.151
IFNab	0.0	0.762
IFNg	0.0	-0.294
IFNg_GMCSF1	0.0	-0.962
Rv1432_day32	0.0	-3.055
Rv1565c_day32	0.0	0.539
secA2_input	0.0	-1.277
delta_Rv3594	-0.176	0.089
delta_Rv3717	-0.477	-0.238
delta_Rv3811	-0.564	-0.165
delta_Rv0954	-0.49	-2.079
PonA1	1.601	0.054
EccD1_KO	0.0	-0.743
EspI_KO	0.0	0.165
PE35_KO	0.403	0.887
PPE68_KO	0.0	-0.032
glycerol2	0.0	-0.085
lignocerate	0.0	-1.023
oleate	0.0	-4.004
phosphatidylcholine	0.0	-0.098
acetate	0.63	0.0
glucAc	0.0	-0.52
Rv0950ko	0.727	-0.241
Rv1096ko	0.38	-1.089
Rv3684ko	0.789	-1.104
delta_otsA_trehalose	0.254	-0.19