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 Rv1744c/-:

update plot	correlation	link to info on gene
Rv2742c/-	(cc=0.5355)	info on Rv2742c/-
Rv2459/-	(cc=0.4801)	info on Rv2459/-
Rv1373/-	(cc=0.4775)	info on Rv1373/-
Rv0399c/lpqK	(cc=0.4697)	info on Rv0399c/lpqK
Rv2558/-	(cc=0.4691)	info on Rv2558/-
Rv3191c/-	(cc=0.4633)	info on Rv3191c/-
Rv1970/lprM	(cc=0.4515)	info on Rv1970/lprM
Rv0230c/php	(cc=0.4367)	info on Rv0230c/php
Rv1857/modA	(cc=0.4352)	info on Rv1857/modA
Rv2738c/-	(cc=0.4336)	info on Rv2738c/-

Correlation of Rv1744c/- with Rv3191c/-

Normalized LFCs for Rv1744c/-:
(description and provenance of datasets)

	Rv1744c/-	Rv3191c/-
Fe_supp_jason_reseq	-0.339	-0.024
low_pH_jason_reseq	-1.026	-0.37
NO_jason_reseq	-0.226	-0.06
B6_jason_reseq	-0.109	0.47
MHCII_jason_reseq	-0.457	0.448
Isoniazid02	-1.884	-1.929
Rifampicin4	0.206	0.625
Ethambutol3	-1.494	-2.151
Meropenem3	-0.528	-0.361
Vancomycin16	-0.913	-0.907
Rv2680_day32	0.393	0.071
H37Rv_KO_MarP	0.093	0.409
hypoxia_3wks	-0.235	-0.395
hypoxia_6wks	-0.342	-0.683
glycerol	0.097	-0.176
cholesterol	0.338	-0.111
AJ	-0.261	0.424
Bibs02	-0.03	0.283
Bibs02c	0.405	0.57
BL6	-0.761	-0.065
BL6a	0.494	0.716
BXD01	0.112	-0.167
BXD010	0.418	0.178
BXD011	0.718	0.436
BXD03	-0.444	0.247
BXD04	0.134	0.221
BXD05	-0.849	0.692
BXD06	0.006	0.452
BXD07	-0.046	0.158
BXD08	0.064	0.253
BXD09	-0.298	0.623
CAST	-0.247	0.439
CCcont	-0.733	0.151
DS01	-0.296	0.862
DS02	-0.528	0.285
DS04	0.509	1.062
DS0c	0.0	0.292
GP01	0.828	0.304
GP02	0.626	-0.484
GP0c	0.122	-0.684
NOD	1.128	0.539
NZO	-0.464	0.585
PWK	-0.377	0.624
H37Rv_KO_CtpC	-0.047	0.291
H37Rv_KO_CtpD	-0.13	0.08
H37Rv_KO_Rv1272	0.379	0.547
H37Rv_KO_SugABC	0.749	0.526
H37Rv_KO_MbtN	-0.467	0.429
Trans05	0.037	0.094
macrophage_unactivated	0.455	-0.174
IL1	-0.178	-0.047
Rapamycin	-0.104	-0.169
Tcell	0.446	-0.606
GMCSF	0.217	0.013
IFNab	-0.967	0.287
IFNg	-0.16	0.102
IFNg_GMCSF1	0.754	0.33
Rv1432_day32	0.22	0.316
Rv1565c_day32	-0.948	-0.591
secA2_input	-0.52	-0.632
delta_Rv3594	0.665	-0.08
delta_Rv3717	-0.375	-0.216
delta_Rv3811	0.309	0.025
delta_Rv0954	0.222	-0.26
PonA1	0.549	0.123
EccD1_KO	0.378	-0.217
EspI_KO	0.214	0.371
PE35_KO	-0.435	0.082
PPE68_KO	-0.416	-0.189
glycerol2	-0.063	-0.113
lignocerate	-0.1	0.516
oleate	-0.56	-0.413
phosphatidylcholine	-0.115	0.084
acetate	0.574	0.57
glucAc	0.156	0.485
Rv0950ko	0.139	0.109
Rv1096ko	-0.407	0.38
Rv3684ko	-1.015	0.301
delta_otsA_trehalose	-0.424	-0.138