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 Rv1757c/-

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

	Rv3381c/-	Rv1757c/-
Fe_supp_jason_reseq	0.027	-0.587
low_pH_jason_reseq	0.413	0.032
NO_jason_reseq	0.137	0.163
B6_jason_reseq	-0.307	-0.59
MHCII_jason_reseq	0.322	-0.42
Isoniazid02	-0.191	-0.087
Rifampicin4	0.068	0.552
Ethambutol3	1.231	1.197
Meropenem3	-0.375	-0.386
Vancomycin16	-0.066	-0.175
Rv2680_day32	0.005	-0.243
H37Rv_KO_MarP	-0.234	-0.014
hypoxia_3wks	0.865	0.722
hypoxia_6wks	0.0	-0.474
glycerol	-0.654	-1.132
cholesterol	-0.163	-0.186
AJ	1.198	1.208
Bibs02	0.102	-0.67
Bibs02c	0.9	0.668
BL6	-0.594	-0.493
BL6a	0.37	0.425
BXD01	-0.016	0.091
BXD010	0.163	0.052
BXD011	-0.021	0.038
BXD03	0.096	0.084
BXD04	-0.263	-0.072
BXD05	0.332	0.559
BXD06	0.121	0.059
BXD07	0.221	0.148
BXD08	-0.131	0.188
BXD09	-0.314	-0.121
CAST	0.649	0.255
CCcont	-0.727	-0.374
DS01	0.696	-0.118
DS02	0.627	-0.118
DS04	0.559	0.361
DS0c	1.105	-0.162
GP01	0.821	1.102
GP02	1.283	1.479
GP0c	0.175	0.523
NOD	0.295	0.501
NZO	1.045	0.696
PWK	1.38	1.41
H37Rv_KO_CtpC	0.542	0.234
H37Rv_KO_CtpD	0.184	0.047
H37Rv_KO_Rv1272	-0.139	0.005
H37Rv_KO_SugABC	-0.206	-0.332
H37Rv_KO_MbtN	0.939	0.929
Trans05	0.348	0.136
macrophage_unactivated	-1.001	0.322
IL1	-1.166	-0.893
Rapamycin	-0.608	-0.703
Tcell	-1.916	-1.665
GMCSF	-0.504	-0.198
IFNab	-1.11	-1.487
IFNg	-0.847	-0.371
IFNg_GMCSF1	0.082	0.321
Rv1432_day32	1.245	1.907
Rv1565c_day32	-0.322	-0.044
secA2_input	-0.127	0.269
delta_Rv3594	-0.047	-0.06
delta_Rv3717	-0.262	-0.299
delta_Rv3811	-0.352	-0.306
delta_Rv0954	-0.063	0.09
PonA1	-0.871	-0.87
EccD1_KO	-0.539	0.872
EspI_KO	0.887	0.773
PE35_KO	0.744	1.076
PPE68_KO	0.435	0.57
glycerol2	0.284	0.321
lignocerate	0.118	0.102
oleate	0.149	-0.234
phosphatidylcholine	0.228	0.193
acetate	2.045	1.109
glucAc	2.18	1.617
Rv0950ko	0.332	0.528
Rv1096ko	0.274	-0.181
Rv3684ko	0.016	0.203
delta_otsA_trehalose	0.201	0.498