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 Rv1149/-:

update plot	correlation	link to info on gene
Rv1042c/-	(cc=0.8949)	info on Rv1042c/-
Rv1041c/-	(cc=0.5896)	info on Rv1041c/-
Rv1135c/PPE16	(cc=0.5268)	info on Rv1135c/PPE16
Rv2673/aftC	(cc=0.481)	info on Rv2673/aftC
Rv2270/lppN	(cc=0.4556)	info on Rv2270/lppN
Rv1773c/-	(cc=0.4541)	info on Rv1773c/-
Rv3392c/cmaA1	(cc=0.4458)	info on Rv3392c/cmaA1
Rv2811/-	(cc=0.4378)	info on Rv2811/-
Rv2854/-	(cc=0.4282)	info on Rv2854/-
Rv0817c/-	(cc=0.4256)	info on Rv0817c/-

Correlation of Rv1149/- with Rv2673/aftC

Normalized LFCs for Rv1149/-:
(description and provenance of datasets)

	Rv1149/-	Rv2673/aftC
Fe_supp_jason_reseq	-1.566	-0.508
low_pH_jason_reseq	-1.532	-0.201
NO_jason_reseq	-0.37	-0.483
B6_jason_reseq	0.532	-1.314
MHCII_jason_reseq	0.553	-1.292
Isoniazid02	0.048	0.135
Rifampicin4	1.235	0.0
Ethambutol3	0.495	-0.251
Meropenem3	0.767	-0.12
Vancomycin16	0.499	0.0
Rv2680_day32	-0.613	0.0
H37Rv_KO_MarP	0.073	-0.313
hypoxia_3wks	1.236	-0.371
hypoxia_6wks	1.347	0.0
glycerol	0.255	-0.353
cholesterol	0.146	-0.398
AJ	0.813	0.0
Bibs02	0.287	0.273
Bibs02c	1.363	0.0
BL6	-0.264	0.351
BL6a	0.913	0.154
BXD01	0.281	0.365
BXD010	0.804	0.099
BXD011	-0.142	0.817
BXD03	0.807	0.536
BXD04	-0.546	0.185
BXD05	0.505	0.292
BXD06	0.326	0.374
BXD07	0.399	0.549
BXD08	-0.707	0.527
BXD09	0.493	0.477
CAST	0.232	-0.192
CCcont	-0.865	0.749
DS01	0.743	-0.197
DS02	0.432	-0.38
DS04	0.195	0.0
DS0c	0.03	0.168
GP01	-2.51	-0.271
GP02	-1.23	-0.228
GP0c	-0.676	-0.357
NOD	1.751	1.715
NZO	0.0	0.298
PWK	0.895	0.983
H37Rv_KO_CtpC	3.594	1.582
H37Rv_KO_CtpD	1.213	-0.221
H37Rv_KO_Rv1272	0.01	0.479
H37Rv_KO_SugABC	-1.653	0.497
H37Rv_KO_MbtN	0.607	0.0
Trans05	0.951	1.5
macrophage_unactivated	-0.432	-1.016
IL1	0.059	-0.219
Rapamycin	0.092	-0.718
Tcell	0.254	-0.762
GMCSF	0.106	-0.401
IFNab	-0.184	-0.46
IFNg	-0.136	0.54
IFNg_GMCSF1	-0.063	0.434
Rv1432_day32	0.658	0.391
Rv1565c_day32	1.054	0.0
secA2_input	0.734	-0.366
delta_Rv3594	0.165	0.119
delta_Rv3717	1.187	-0.103
delta_Rv3811	0.745	-0.122
delta_Rv0954	0.933	0.101
PonA1	-0.591	-0.675
EccD1_KO	1.885	1.365
EspI_KO	1.6	0.918
PE35_KO	1.671	1.467
PPE68_KO	2.451	1.872
glycerol2	-0.719	-0.914
lignocerate	-0.865	-0.634
oleate	-0.293	-1.754
phosphatidylcholine	-0.629	-0.913
acetate	-0.547	-1.453
glucAc	-0.572	-0.605
Rv0950ko	0.859	0.0
Rv1096ko	1.517	0.706
Rv3684ko	0.933	0.0
delta_otsA_trehalose	-0.873	0.329