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 Rv1373/-

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

	Rv1744c/-	Rv1373/-
Fe_supp_jason_reseq	-0.339	-0.068
low_pH_jason_reseq	-1.026	-0.259
NO_jason_reseq	-0.226	-0.037
B6_jason_reseq	-0.109	0.623
MHCII_jason_reseq	-0.457	0.244
Isoniazid02	-1.884	-0.882
Rifampicin4	0.206	-0.409
Ethambutol3	-1.494	-1.194
Meropenem3	-0.528	-0.418
Vancomycin16	-0.913	-0.61
Rv2680_day32	0.393	0.114
H37Rv_KO_MarP	0.093	0.257
hypoxia_3wks	-0.235	-0.02
hypoxia_6wks	-0.342	0.167
glycerol	0.097	-0.335
cholesterol	0.338	-0.043
AJ	-0.261	0.439
Bibs02	-0.03	-0.183
Bibs02c	0.405	-0.306
BL6	-0.761	0.607
BL6a	0.494	0.065
BXD01	0.112	0.35
BXD010	0.418	0.702
BXD011	0.718	0.907
BXD03	-0.444	0.698
BXD04	0.134	0.755
BXD05	-0.849	0.241
BXD06	0.006	0.513
BXD07	-0.046	0.067
BXD08	0.064	0.514
BXD09	-0.298	0.532
CAST	-0.247	0.529
CCcont	-0.733	0.136
DS01	-0.296	0.058
DS02	-0.528	-0.392
DS04	0.509	0.2
DS0c	0.0	0.105
GP01	0.828	0.44
GP02	0.626	1.553
GP0c	0.122	0.518
NOD	1.128	1.183
NZO	-0.464	0.364
PWK	-0.377	0.111
H37Rv_KO_CtpC	-0.047	0.215
H37Rv_KO_CtpD	-0.13	0.648
H37Rv_KO_Rv1272	0.379	0.48
H37Rv_KO_SugABC	0.749	0.915
H37Rv_KO_MbtN	-0.467	0.345
Trans05	0.037	1.058
macrophage_unactivated	0.455	0.262
IL1	-0.178	0.578
Rapamycin	-0.104	0.847
Tcell	0.446	0.401
GMCSF	0.217	0.525
IFNab	-0.967	0.0
IFNg	-0.16	0.543
IFNg_GMCSF1	0.754	0.233
Rv1432_day32	0.22	-0.378
Rv1565c_day32	-0.948	-0.201
secA2_input	-0.52	-0.29
delta_Rv3594	0.665	0.675
delta_Rv3717	-0.375	0.028
delta_Rv3811	0.309	0.097
delta_Rv0954	0.222	0.075
PonA1	0.549	0.067
EccD1_KO	0.378	-0.105
EspI_KO	0.214	0.177
PE35_KO	-0.435	0.073
PPE68_KO	-0.416	0.198
glycerol2	-0.063	0.567
lignocerate	-0.1	0.588
oleate	-0.56	0.656
phosphatidylcholine	-0.115	0.774
acetate	0.574	0.108
glucAc	0.156	0.023
Rv0950ko	0.139	0.802
Rv1096ko	-0.407	0.214
Rv3684ko	-1.015	0.419
delta_otsA_trehalose	-0.424	-0.693