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 Rv3032/-:

update plot	correlation	link to info on gene
Rv1208/gpgS	(cc=0.7693)	info on Rv1208/gpgS
Rv2130c/mshC	(cc=0.7094)	info on Rv2130c/mshC
Rv2907c/rimM	(cc=0.686)	info on Rv2907c/rimM
Rv2980/-	(cc=0.6653)	info on Rv2980/-
Rv1437/pgk	(cc=0.6545)	info on Rv1437/pgk
Rv1242/vapC33	(cc=0.6406)	info on Rv1242/vapC33
Rv1002c/-	(cc=0.6104)	info on Rv1002c/-
Rv2359/zur	(cc=0.5922)	info on Rv2359/zur
Rv2470/glbO	(cc=0.5878)	info on Rv2470/glbO
Rv1023/eno	(cc=0.5871)	info on Rv1023/eno

Correlation of Rv3032/- with Rv1242/vapC33

Normalized LFCs for Rv3032/-:
(description and provenance of datasets)

	Rv3032/-	Rv1242/vapC33
Fe_supp_jason_reseq	0.0	-0.057
low_pH_jason_reseq	0.0	-0.661
NO_jason_reseq	0.0	0.417
B6_jason_reseq	0.0	-1.081
MHCII_jason_reseq	0.0	0.132
Isoniazid02	0.0	-1.871
Rifampicin4	0.0	0.536
Ethambutol3	0.0	-0.992
Meropenem3	0.0	-1.323
Vancomycin16	0.0	-0.695
Rv2680_day32	0.249	-0.131
H37Rv_KO_MarP	-0.151	0.659
hypoxia_3wks	0.0	0.227
hypoxia_6wks	0.0	0.418
glycerol	0.0	0.054
cholesterol	0.0	0.523
AJ	0.0	0.756
Bibs02	0.0	0.274
Bibs02c	0.0	-0.115
BL6	0.0	0.357
BL6a	0.0	-0.478
BXD01	0.0	-1.108
BXD010	0.0	0.186
BXD011	0.0	-0.564
BXD03	0.0	-0.229
BXD04	0.0	-0.469
BXD05	0.0	0.59
BXD06	0.0	-0.602
BXD07	0.0	-0.363
BXD08	0.0	-1.214
BXD09	0.0	-0.73
CAST	0.0	0.237
CCcont	0.285	-0.578
DS01	0.0	-0.091
DS02	0.0	-0.6
DS04	0.0	-0.118
DS0c	0.0	-0.889
GP01	0.0	-0.663
GP02	0.0	-0.212
GP0c	0.0	-1.154
NOD	0.0	0.011
NZO	0.0	0.243
PWK	0.0	0.35
H37Rv_KO_CtpC	0.0	-1.026
H37Rv_KO_CtpD	0.0	0.33
H37Rv_KO_Rv1272	0.0	-0.36
H37Rv_KO_SugABC	0.0	-0.506
H37Rv_KO_MbtN	0.0	0.197
Trans05	0.0	0.666
macrophage_unactivated	0.0	-0.638
IL1	0.0	-0.427
Rapamycin	0.0	-0.62
Tcell	0.0	-1.134
GMCSF	0.0	-0.861
IFNab	0.0	-1.654
IFNg	0.0	-0.337
IFNg_GMCSF1	0.0	0.16
Rv1432_day32	0.0	0.034
Rv1565c_day32	0.0	-0.425
secA2_input	0.806	1.191
delta_Rv3594	0.402	0.034
delta_Rv3717	0.331	-0.179
delta_Rv3811	0.0	-1.063
delta_Rv0954	0.49	-0.089
PonA1	0.0	-0.039
EccD1_KO	0.378	1.572
EspI_KO	3.18	1.894
PE35_KO	2.739	2.281
PPE68_KO	1.872	2.793
glycerol2	0.0	-0.277
lignocerate	0.0	-0.558
oleate	0.0	0.247
phosphatidylcholine	0.0	-0.129
acetate	0.0	-0.273
glucAc	0.0	-0.441
Rv0950ko	0.0	-1.17
Rv1096ko	0.347	-0.169
Rv3684ko	1.055	-0.059
delta_otsA_trehalose	1.151	1.739