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 Rv3381c/-:

update plot	correlation	link to info on gene
Rv1370c/-	(cc=0.8699)	info on Rv1370c/-
Rv2648/-	(cc=0.8436)	info on Rv2648/-
Rv3325/-	(cc=0.8349)	info on Rv3325/-
Rv1757c/-	(cc=0.8085)	info on Rv1757c/-
Rv2105/-	(cc=0.8048)	info on Rv2105/-
Rv1763/-	(cc=0.8046)	info on Rv1763/-
Rv3474/-	(cc=0.7767)	info on Rv3474/-
Rv2815c/-	(cc=0.7589)	info on Rv2815c/-
Rv0795/-	(cc=0.7273)	info on Rv0795/-
Rv2278/-	(cc=0.7084)	info on Rv2278/-

Correlation of Rv3381c/- with Rv3325/-

Normalized LFCs for Rv3381c/-:
(description and provenance of datasets)

	Rv3381c/-	Rv3325/-
Fe_supp_jason_reseq	0.027	-0.032
low_pH_jason_reseq	0.413	0.187
NO_jason_reseq	0.137	-0.391
B6_jason_reseq	-0.307	0.174
MHCII_jason_reseq	0.322	-0.044
Isoniazid02	-0.191	0.211
Rifampicin4	0.068	0.931
Ethambutol3	1.231	1.294
Meropenem3	-0.375	-0.095
Vancomycin16	-0.066	0.411
Rv2680_day32	0.005	-0.624
H37Rv_KO_MarP	-0.234	-0.333
hypoxia_3wks	0.865	0.809
hypoxia_6wks	0.0	-0.203
glycerol	-0.654	-1.147
cholesterol	-0.163	-0.305
AJ	1.198	1.17
Bibs02	0.102	0.074
Bibs02c	0.9	0.353
BL6	-0.594	-0.304
BL6a	0.37	0.264
BXD01	-0.016	-0.101
BXD010	0.163	0.192
BXD011	-0.021	0.178
BXD03	0.096	0.078
BXD04	-0.263	-0.096
BXD05	0.332	0.311
BXD06	0.121	-0.164
BXD07	0.221	0.095
BXD08	-0.131	-0.186
BXD09	-0.314	0.196
CAST	0.649	0.532
CCcont	-0.727	-0.363
DS01	0.696	0.37
DS02	0.627	0.509
DS04	0.559	0.119
DS0c	1.105	1.023
GP01	0.821	0.771
GP02	1.283	1.281
GP0c	0.175	0.556
NOD	0.295	0.083
NZO	1.045	0.964
PWK	1.38	1.069
H37Rv_KO_CtpC	0.542	0.089
H37Rv_KO_CtpD	0.184	0.114
H37Rv_KO_Rv1272	-0.139	-0.259
H37Rv_KO_SugABC	-0.206	-0.232
H37Rv_KO_MbtN	0.939	0.67
Trans05	0.348	0.009
macrophage_unactivated	-1.001	-1.244
IL1	-1.166	-1.21
Rapamycin	-0.608	-0.601
Tcell	-1.916	-0.899
GMCSF	-0.504	-1.188
IFNab	-1.11	-1.11
IFNg	-0.847	-1.299
IFNg_GMCSF1	0.082	-0.578
Rv1432_day32	1.245	1.314
Rv1565c_day32	-0.322	-0.311
secA2_input	-0.127	-0.013
delta_Rv3594	-0.047	0.45
delta_Rv3717	-0.262	-0.145
delta_Rv3811	-0.352	-0.208
delta_Rv0954	-0.063	0.324
PonA1	-0.871	-0.308
EccD1_KO	-0.539	0.237
EspI_KO	0.887	1.292
PE35_KO	0.744	1.07
PPE68_KO	0.435	0.88
glycerol2	0.284	-0.245
lignocerate	0.118	-0.184
oleate	0.149	-0.668
phosphatidylcholine	0.228	-0.245
acetate	2.045	1.081
glucAc	2.18	1.52
Rv0950ko	0.332	0.811
Rv1096ko	0.274	0.534
Rv3684ko	0.016	0.108
delta_otsA_trehalose	0.201	-0.317