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 Rv1436/gap:

update plot	correlation	link to info on gene
Rv2130c/mshC	(cc=0.8763)	info on Rv2130c/mshC
Rv3603c/-	(cc=0.8488)	info on Rv3603c/-
Rv1002c/-	(cc=0.8007)	info on Rv1002c/-
Rv1208/gpgS	(cc=0.7808)	info on Rv1208/gpgS
Rv3601c/panD	(cc=0.7527)	info on Rv3601c/panD
Rv0411c/glnH	(cc=0.7423)	info on Rv0411c/glnH
Rv1437/pgk	(cc=0.7369)	info on Rv1437/pgk
Rv2844/-	(cc=0.7192)	info on Rv2844/-
Rv2847c/cysG	(cc=0.669)	info on Rv2847c/cysG
Rv2470/glbO	(cc=0.6659)	info on Rv2470/glbO

Correlation of Rv1436/gap with Rv2470/glbO

Normalized LFCs for Rv1436/gap:
(description and provenance of datasets)

	Rv1436/gap	Rv2470/glbO
Fe_supp_jason_reseq	0.218	0.0
low_pH_jason_reseq	0.0	0.44
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.0	1.455
Rifampicin4	0.0	0.271
Ethambutol3	0.0	0.122
Meropenem3	0.0	0.528
Vancomycin16	0.0	0.265
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-1.307	-0.586
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.709
cholesterol	0.0	0.509
AJ	0.0	0.232
Bibs02	0.0	0.0
Bibs02c	0.0	0.887
BL6	0.0	0.0
BL6a	0.0	0.696
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.243
BXD03	0.0	0.258
BXD04	0.0	0.124
BXD05	0.0	0.135
BXD06	0.0	0.133
BXD07	0.0	0.0
BXD08	0.0	0.133
BXD09	0.0	0.0
CAST	0.0	0.23
CCcont	0.0	1.3
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	0.596
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	1.103
NZO	0.0	0.548
PWK	0.0	0.539
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.0	0.127
H37Rv_KO_Rv1272	0.0	0.141
H37Rv_KO_SugABC	0.0	0.099
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.599
secA2_input	-0.7	-0.357
delta_Rv3594	0.0	0.402
delta_Rv3717	0.0	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	0.34	1.553
PonA1	0.0	1.154
EccD1_KO	0.0	1.194
EspI_KO	0.0	2.219
PE35_KO	1.978	2.917
PPE68_KO	2.169	3.52
glycerol2	-0.369	-0.82
lignocerate	-0.32	-1.425
oleate	-0.373	-1.659
phosphatidylcholine	-0.368	-2.007
acetate	-0.437	-0.09
glucAc	-0.272	0.157
Rv0950ko	0.347	-0.715
Rv1096ko	-0.793	-2.177
Rv3684ko	0.727	-0.609
delta_otsA_trehalose	0.0	1.751