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 Rv1763/-

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

	Rv3381c/-	Rv1763/-
Fe_supp_jason_reseq	0.027	-0.073
low_pH_jason_reseq	0.413	0.753
NO_jason_reseq	0.137	-0.486
B6_jason_reseq	-0.307	-0.009
MHCII_jason_reseq	0.322	0.467
Isoniazid02	-0.191	0.301
Rifampicin4	0.068	1.235
Ethambutol3	1.231	1.385
Meropenem3	-0.375	0.144
Vancomycin16	-0.066	0.645
Rv2680_day32	0.005	-0.269
H37Rv_KO_MarP	-0.234	-0.36
hypoxia_3wks	0.865	0.961
hypoxia_6wks	0.0	-0.157
glycerol	-0.654	-0.673
cholesterol	-0.163	-0.079
AJ	1.198	1.577
Bibs02	0.102	0.094
Bibs02c	0.9	0.965
BL6	-0.594	0.481
BL6a	0.37	0.314
BXD01	-0.016	0.187
BXD010	0.163	0.366
BXD011	-0.021	0.317
BXD03	0.096	0.541
BXD04	-0.263	0.242
BXD05	0.332	0.709
BXD06	0.121	0.295
BXD07	0.221	0.354
BXD08	-0.131	0.18
BXD09	-0.314	0.066
CAST	0.649	0.823
CCcont	-0.727	-0.534
DS01	0.696	0.462
DS02	0.627	0.715
DS04	0.559	0.651
DS0c	1.105	0.976
GP01	0.821	0.938
GP02	1.283	1.192
GP0c	0.175	0.273
NOD	0.295	0.01
NZO	1.045	1.009
PWK	1.38	1.716
H37Rv_KO_CtpC	0.542	0.387
H37Rv_KO_CtpD	0.184	-0.191
H37Rv_KO_Rv1272	-0.139	0.181
H37Rv_KO_SugABC	-0.206	-0.144
H37Rv_KO_MbtN	0.939	1.569
Trans05	0.348	0.289
macrophage_unactivated	-1.001	-1.158
IL1	-1.166	-2.426
Rapamycin	-0.608	-1.541
Tcell	-1.916	-2.092
GMCSF	-0.504	-1.695
IFNab	-1.11	-2.969
IFNg	-0.847	-1.478
IFNg_GMCSF1	0.082	-0.874
Rv1432_day32	1.245	1.764
Rv1565c_day32	-0.322	0.281
secA2_input	-0.127	0.767
delta_Rv3594	-0.047	0.285
delta_Rv3717	-0.262	-0.239
delta_Rv3811	-0.352	-0.031
delta_Rv0954	-0.063	0.735
PonA1	-0.871	-0.524
EccD1_KO	-0.539	-0.217
EspI_KO	0.887	0.682
PE35_KO	0.744	0.327
PPE68_KO	0.435	0.102
glycerol2	0.284	-0.014
lignocerate	0.118	-0.314
oleate	0.149	0.167
phosphatidylcholine	0.228	0.077
acetate	2.045	0.805
glucAc	2.18	1.382
Rv0950ko	0.332	0.238
Rv1096ko	0.274	0.362
Rv3684ko	0.016	-0.21
delta_otsA_trehalose	0.201	0.448