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 Rv0795/-

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

	Rv3381c/-	Rv0795/-
Fe_supp_jason_reseq	0.027	0.079
low_pH_jason_reseq	0.413	1.603
NO_jason_reseq	0.137	0.034
B6_jason_reseq	-0.307	-0.974
MHCII_jason_reseq	0.322	-0.578
Isoniazid02	-0.191	-0.073
Rifampicin4	0.068	0.452
Ethambutol3	1.231	1.229
Meropenem3	-0.375	-0.246
Vancomycin16	-0.066	0.13
Rv2680_day32	0.005	-0.092
H37Rv_KO_MarP	-0.234	-0.095
hypoxia_3wks	0.865	0.937
hypoxia_6wks	0.0	-0.115
glycerol	-0.654	-0.404
cholesterol	-0.163	0.035
AJ	1.198	1.106
Bibs02	0.102	-0.136
Bibs02c	0.9	0.705
BL6	-0.594	-0.471
BL6a	0.37	0.736
BXD01	-0.016	0.484
BXD010	0.163	0.551
BXD011	-0.021	0.895
BXD03	0.096	0.927
BXD04	-0.263	0.223
BXD05	0.332	1.063
BXD06	0.121	0.417
BXD07	0.221	0.626
BXD08	-0.131	0.323
BXD09	-0.314	0.493
CAST	0.649	0.839
CCcont	-0.727	-0.352
DS01	0.696	-0.068
DS02	0.627	0.339
DS04	0.559	-0.247
DS0c	1.105	0.338
GP01	0.821	1.127
GP02	1.283	1.331
GP0c	0.175	0.461
NOD	0.295	0.106
NZO	1.045	1.035
PWK	1.38	1.017
H37Rv_KO_CtpC	0.542	0.473
H37Rv_KO_CtpD	0.184	0.223
H37Rv_KO_Rv1272	-0.139	0.0
H37Rv_KO_SugABC	-0.206	-0.054
H37Rv_KO_MbtN	0.939	0.953
Trans05	0.348	0.376
macrophage_unactivated	-1.001	-0.578
IL1	-1.166	-0.587
Rapamycin	-0.608	-0.166
Tcell	-1.916	-0.088
GMCSF	-0.504	-0.18
IFNab	-1.11	-0.883
IFNg	-0.847	0.053
IFNg_GMCSF1	0.082	0.493
Rv1432_day32	1.245	0.782
Rv1565c_day32	-0.322	-0.164
secA2_input	-0.127	-0.258
delta_Rv3594	-0.047	-0.151
delta_Rv3717	-0.262	-0.172
delta_Rv3811	-0.352	-0.428
delta_Rv0954	-0.063	0.182
PonA1	-0.871	-0.248
EccD1_KO	-0.539	-1.2
EspI_KO	0.887	-0.023
PE35_KO	0.744	0.671
PPE68_KO	0.435	-0.576
glycerol2	0.284	0.163
lignocerate	0.118	0.15
oleate	0.149	-0.401
phosphatidylcholine	0.228	-0.053
acetate	2.045	1.593
glucAc	2.18	1.894
Rv0950ko	0.332	0.543
Rv1096ko	0.274	0.875
Rv3684ko	0.016	-0.354
delta_otsA_trehalose	0.201	0.193