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 Rv1002c/-:

update plot	correlation	link to info on gene
Rv2130c/mshC	(cc=0.8843)	info on Rv2130c/mshC
Rv1436/gap	(cc=0.8007)	info on Rv1436/gap
Rv2507/-	(cc=0.7836)	info on Rv2507/-
Rv0127/mak	(cc=0.7438)	info on Rv0127/mak
Rv1208/gpgS	(cc=0.737)	info on Rv1208/gpgS
Rv0411c/glnH	(cc=0.7193)	info on Rv0411c/glnH
Rv3601c/panD	(cc=0.7148)	info on Rv3601c/panD
Rv3212/-	(cc=0.7048)	info on Rv3212/-
Rv0410c/pknG	(cc=0.6534)	info on Rv0410c/pknG
Rv0412c/-	(cc=0.6477)	info on Rv0412c/-

Correlation of Rv1002c/- with Rv3212/-

Normalized LFCs for Rv1002c/-:
(description and provenance of datasets)

	Rv1002c/-	Rv3212/-
Fe_supp_jason_reseq	-0.415	0.169
low_pH_jason_reseq	0.0	-0.634
NO_jason_reseq	0.302	-0.302
B6_jason_reseq	-0.292	0.0
MHCII_jason_reseq	-0.257	-0.37
Isoniazid02	0.0	0.167
Rifampicin4	0.0	0.311
Ethambutol3	0.0	0.27
Meropenem3	0.0	0.138
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	-1.389
H37Rv_KO_MarP	-1.696	-1.216
hypoxia_3wks	0.0	-0.55
hypoxia_6wks	0.0	-0.288
glycerol	0.0	-0.184
cholesterol	0.0	-0.276
AJ	0.0	-0.212
Bibs02	0.0	-0.167
Bibs02c	0.0	0.488
BL6	0.0	-0.238
BL6a	0.0	0.462
BXD01	0.0	-0.248
BXD010	0.0	-0.244
BXD011	0.0	-0.243
BXD03	0.0	-0.258
BXD04	0.0	-0.236
BXD05	0.0	-0.256
BXD06	0.0	-0.254
BXD07	0.0	-0.264
BXD08	0.0	-0.253
BXD09	0.0	-0.268
CAST	0.0	0.192
CCcont	0.0	-0.285
DS01	0.0	0.38
DS02	0.0	1.161
DS04	0.0	-0.37
DS0c	0.0	0.0
GP01	0.0	1.075
GP02	0.0	-0.159
GP0c	0.0	0.942
NOD	0.0	-0.205
NZO	0.0	-0.182
PWK	0.0	-0.374
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.0	-0.241
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	-0.189
H37Rv_KO_MbtN	0.0	-0.196
Trans05	0.0	0.393
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	-0.683
delta_Rv3594	0.0	-0.369
delta_Rv3717	0.174	0.135
delta_Rv3811	0.564	0.923
delta_Rv0954	0.627	-0.49
PonA1	0.0	0.541
EccD1_KO	0.0	1.799
EspI_KO	0.516	0.856
PE35_KO	1.8	1.368
PPE68_KO	2.358	2.428
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-0.971	-0.905
Rv1096ko	-0.302	-0.28
Rv3684ko	2.414	2.109
delta_otsA_trehalose	0.0	0.0