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 Rv2130c/mshC:

update plot	correlation	link to info on gene
Rv3601c/panD	(cc=0.8918)	info on Rv3601c/panD
Rv1002c/-	(cc=0.8843)	info on Rv1002c/-
Rv1208/gpgS	(cc=0.8839)	info on Rv1208/gpgS
Rv1436/gap	(cc=0.8763)	info on Rv1436/gap
Rv3603c/-	(cc=0.7292)	info on Rv3603c/-
Rv3032/-	(cc=0.7094)	info on Rv3032/-
Rv0411c/glnH	(cc=0.7071)	info on Rv0411c/glnH
Rv2844/-	(cc=0.6834)	info on Rv2844/-
Rv3212/-	(cc=0.6625)	info on Rv3212/-
Rv2507/-	(cc=0.6603)	info on Rv2507/-

Correlation of Rv2130c/mshC with Rv1436/gap

Normalized LFCs for Rv2130c/mshC:
(description and provenance of datasets)

	Rv2130c/mshC	Rv1436/gap
Fe_supp_jason_reseq	0.0	0.218
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.0	0.0
Rifampicin4	0.0	0.0
Ethambutol3	0.0	0.0
Meropenem3	0.0	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.535	-1.307
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.0	0.0
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
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	0.0
secA2_input	-0.348	-0.7
delta_Rv3594	0.0	0.0
delta_Rv3717	0.0	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	0.0	0.34
PonA1	0.0	0.0
EccD1_KO	0.0	0.0
EspI_KO	0.394	0.0
PE35_KO	2.917	1.978
PPE68_KO	2.713	2.169
glycerol2	0.0	-0.369
lignocerate	0.0	-0.32
oleate	0.0	-0.373
phosphatidylcholine	0.0	-0.368
acetate	0.0	-0.437
glucAc	0.0	-0.272
Rv0950ko	-0.28	0.347
Rv1096ko	-0.28	-0.793
Rv3684ko	1.916	0.727
delta_otsA_trehalose	0.133	0.0