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 Rv0338c/-:

update plot	correlation	link to info on gene
Rv0069c/sdaA	(cc=0.7502)	info on Rv0069c/sdaA
Rv0373c/-	(cc=0.7289)	info on Rv0373c/-
Rv0320/-	(cc=0.6864)	info on Rv0320/-
Rv2268c/cyp128	(cc=0.6383)	info on Rv2268c/cyp128
Rv1371/-	(cc=0.5779)	info on Rv1371/-
Rv1675c/cmr	(cc=0.5732)	info on Rv1675c/cmr
Rv2095c/pafC	(cc=0.5539)	info on Rv2095c/pafC
Rv0669c/-	(cc=0.5529)	info on Rv0669c/-
Rv2715/-	(cc=0.5414)	info on Rv2715/-
Rv3154/nuoJ	(cc=0.5353)	info on Rv3154/nuoJ

Correlation of Rv0338c/- with Rv0069c/sdaA

Normalized LFCs for Rv0338c/-:
(description and provenance of datasets)

	Rv0338c/-	Rv0069c/sdaA
Fe_supp_jason_reseq	0.0	0.205
low_pH_jason_reseq	0.0	-1.367
NO_jason_reseq	0.0	-1.265
B6_jason_reseq	0.0	-0.208
MHCII_jason_reseq	0.0	0.127
Isoniazid02	0.0	-0.049
Rifampicin4	0.0	-0.233
Ethambutol3	0.0	0.627
Meropenem3	0.0	0.278
Vancomycin16	0.0	0.836
Rv2680_day32	0.0	-0.372
H37Rv_KO_MarP	0.0	0.217
hypoxia_3wks	0.0	-0.319
hypoxia_6wks	0.0	-0.299
glycerol	0.385	2.392
cholesterol	3.545	6.0
AJ	0.0	0.187
Bibs02	0.0	-0.592
Bibs02c	0.0	0.196
BL6	0.0	0.084
BL6a	0.0	0.307
BXD01	0.0	-0.154
BXD010	0.0	-0.171
BXD011	0.0	0.68
BXD03	0.0	-0.631
BXD04	0.0	-0.425
BXD05	0.0	-0.223
BXD06	0.0	-0.038
BXD07	0.0	-0.207
BXD08	0.0	0.329
BXD09	0.0	0.076
CAST	0.0	-0.976
CCcont	0.0	0.176
DS01	0.0	-0.279
DS02	0.0	-0.325
DS04	0.0	-1.036
DS0c	0.0	0.363
GP01	0.0	0.265
GP02	0.0	-0.138
GP0c	0.0	0.639
NOD	0.0	-1.596
NZO	0.0	-1.472
PWK	0.0	0.183
H37Rv_KO_CtpC	0.0	0.213
H37Rv_KO_CtpD	0.0	-1.75
H37Rv_KO_Rv1272	0.0	-0.72
H37Rv_KO_SugABC	0.0	0.94
H37Rv_KO_MbtN	0.0	1.301
Trans05	0.0	-0.5
macrophage_unactivated	0.0	0.18
IL1	0.0	0.383
Rapamycin	0.0	0.807
Tcell	0.0	0.42
GMCSF	0.0	-0.264
IFNab	0.0	1.167
IFNg	0.0	0.249
IFNg_GMCSF1	0.0	-0.512
Rv1432_day32	0.0	0.415
Rv1565c_day32	0.0	-0.355
secA2_input	0.847	1.656
delta_Rv3594	0.0	-0.783
delta_Rv3717	0.0	-0.2
delta_Rv3811	0.0	0.299
delta_Rv0954	0.0	0.399
PonA1	0.0	0.943
EccD1_KO	0.0	0.802
EspI_KO	0.0	-0.645
PE35_KO	0.0	0.055
PPE68_KO	0.0	0.781
glycerol2	0.0	0.171
lignocerate	0.0	0.183
oleate	0.0	-0.264
phosphatidylcholine	0.0	-0.067
acetate	0.0	-0.191
glucAc	0.0	-0.249
Rv0950ko	0.0	0.582
Rv1096ko	0.0	0.582
Rv3684ko	0.0	-0.069
delta_otsA_trehalose	0.133	0.027