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 Rv1178/-

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

	Rv2908c/-	Rv1178/-
Fe_supp_jason_reseq	0.0	-1.039
low_pH_jason_reseq	0.0	0.527
NO_jason_reseq	0.0	-5.222
B6_jason_reseq	0.0	-1.36
MHCII_jason_reseq	0.0	-2.581
Isoniazid02	0.0	-1.072
Rifampicin4	0.374	-0.523
Ethambutol3	2.247	1.677
Meropenem3	0.165	1.154
Vancomycin16	0.0	-0.976
Rv2680_day32	0.0	-2.122
H37Rv_KO_MarP	2.492	3.838
hypoxia_3wks	0.0	-4.625
hypoxia_6wks	0.0	-2.422
glycerol	0.0	1.631
cholesterol	0.145	1.675
AJ	0.0	-0.585
Bibs02	0.0	-0.294
Bibs02c	0.0	-0.277
BL6	0.0	-0.53
BL6a	0.0	0.049
BXD01	0.0	-0.458
BXD010	0.0	-0.065
BXD011	0.0	-0.243
BXD03	0.0	-0.573
BXD04	0.0	0.117
BXD05	0.0	-0.975
BXD06	0.0	-0.337
BXD07	0.0	0.034
BXD08	0.0	-0.422
BXD09	0.0	-0.494
CAST	0.0	-0.654
CCcont	0.149	1.517
DS01	0.0	-0.83
DS02	0.217	-0.288
DS04	0.0	0.0
DS0c	0.0	-1.268
GP01	0.0	-0.382
GP02	0.0	-0.839
GP0c	0.0	-0.551
NOD	0.0	-0.789
NZO	0.199	0.405
PWK	0.0	-1.326
H37Rv_KO_CtpC	0.0	0.329
H37Rv_KO_CtpD	0.0	0.061
H37Rv_KO_Rv1272	0.0	-0.109
H37Rv_KO_SugABC	0.0	0.138
H37Rv_KO_MbtN	0.0	-0.558
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.609
IL1	0.0	0.463
Rapamycin	0.0	1.114
Tcell	0.0	0.388
GMCSF	0.0	-1.436
IFNab	0.0	-1.297
IFNg	0.0	-1.0
IFNg_GMCSF1	0.0	0.49
Rv1432_day32	0.0	-1.602
Rv1565c_day32	0.0	-3.533
secA2_input	0.0	-0.205
delta_Rv3594	-0.176	-0.199
delta_Rv3717	-0.477	-1.602
delta_Rv3811	-0.564	-1.344
delta_Rv0954	-0.49	2.212
PonA1	1.601	1.711
EccD1_KO	0.0	0.47
EspI_KO	0.0	0.485
PE35_KO	0.403	0.723
PPE68_KO	0.0	0.873
glycerol2	0.0	-1.789
lignocerate	0.0	-2.153
oleate	0.0	-2.105
phosphatidylcholine	0.0	-2.899
acetate	0.63	-0.888
glucAc	0.0	-0.754
Rv0950ko	0.727	3.745
Rv1096ko	0.38	2.569
Rv3684ko	0.789	3.871
delta_otsA_trehalose	0.254	0.415