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 Rv1370c/-

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

	Rv3381c/-	Rv1370c/-
Fe_supp_jason_reseq	0.027	-0.051
low_pH_jason_reseq	0.413	0.636
NO_jason_reseq	0.137	-0.1
B6_jason_reseq	-0.307	-0.233
MHCII_jason_reseq	0.322	-0.533
Isoniazid02	-0.191	0.029
Rifampicin4	0.068	0.544
Ethambutol3	1.231	1.021
Meropenem3	-0.375	-0.074
Vancomycin16	-0.066	0.0
Rv2680_day32	0.005	-0.111
H37Rv_KO_MarP	-0.234	-0.061
hypoxia_3wks	0.865	0.961
hypoxia_6wks	0.0	-0.24
glycerol	-0.654	-0.78
cholesterol	-0.163	-0.044
AJ	1.198	1.22
Bibs02	0.102	-0.405
Bibs02c	0.9	0.868
BL6	-0.594	-0.691
BL6a	0.37	0.09
BXD01	-0.016	0.086
BXD010	0.163	0.201
BXD011	-0.021	0.099
BXD03	0.096	0.336
BXD04	-0.263	0.116
BXD05	0.332	0.52
BXD06	0.121	0.022
BXD07	0.221	0.223
BXD08	-0.131	-0.006
BXD09	-0.314	0.075
CAST	0.649	0.699
CCcont	-0.727	-0.902
DS01	0.696	0.371
DS02	0.627	0.302
DS04	0.559	0.333
DS0c	1.105	0.325
GP01	0.821	0.964
GP02	1.283	1.089
GP0c	0.175	0.279
NOD	0.295	0.156
NZO	1.045	0.816
PWK	1.38	1.434
H37Rv_KO_CtpC	0.542	0.354
H37Rv_KO_CtpD	0.184	0.063
H37Rv_KO_Rv1272	-0.139	0.115
H37Rv_KO_SugABC	-0.206	0.156
H37Rv_KO_MbtN	0.939	0.918
Trans05	0.348	0.355
macrophage_unactivated	-1.001	-0.524
IL1	-1.166	-1.453
Rapamycin	-0.608	-0.537
Tcell	-1.916	-0.899
GMCSF	-0.504	0.021
IFNab	-1.11	-0.834
IFNg	-0.847	-0.66
IFNg_GMCSF1	0.082	0.217
Rv1432_day32	1.245	1.219
Rv1565c_day32	-0.322	-0.618
secA2_input	-0.127	0.632
delta_Rv3594	-0.047	-0.06
delta_Rv3717	-0.262	-0.342
delta_Rv3811	-0.352	-0.546
delta_Rv0954	-0.063	0.15
PonA1	-0.871	-0.89
EccD1_KO	-0.539	-0.243
EspI_KO	0.887	0.836
PE35_KO	0.744	0.767
PPE68_KO	0.435	-0.339
glycerol2	0.284	-0.619
lignocerate	0.118	-0.203
oleate	0.149	-0.391
phosphatidylcholine	0.228	-0.303
acetate	2.045	1.405
glucAc	2.18	1.746
Rv0950ko	0.332	0.772
Rv1096ko	0.274	0.072
Rv3684ko	0.016	-0.039
delta_otsA_trehalose	0.201	0.517