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 Rv3376/-:

update plot	correlation	link to info on gene
Rv0270/fadD2	(cc=0.4318)	info on Rv0270/fadD2
Rv1347c/mbtK	(cc=0.3493)	info on Rv1347c/mbtK
Rv1332/-	(cc=0.344)	info on Rv1332/-
Rv2941/fadD28	(cc=0.3423)	info on Rv2941/fadD28
Rv1085c/-	(cc=0.3387)	info on Rv1085c/-
Rv0318c/-	(cc=0.3374)	info on Rv0318c/-
Rv1585c/-	(cc=0.3262)	info on Rv1585c/-
Rv2931/ppsA	(cc=0.3247)	info on Rv2931/ppsA
Rv1825/-	(cc=0.3228)	info on Rv1825/-
Rv2932/ppsB	(cc=0.3174)	info on Rv2932/ppsB

Correlation of Rv3376/- with Rv1332/-

Normalized LFCs for Rv3376/-:
(description and provenance of datasets)

	Rv3376/-	Rv1332/-
Fe_supp_jason_reseq	1.579	1.457
low_pH_jason_reseq	1.584	2.51
NO_jason_reseq	-0.725	0.252
B6_jason_reseq	1.759	1.137
MHCII_jason_reseq	0.359	0.927
Isoniazid02	1.355	-1.211
Rifampicin4	-0.452	0.357
Ethambutol3	-0.018	1.355
Meropenem3	-0.131	-0.761
Vancomycin16	0.157	-0.947
Rv2680_day32	0.129	-0.078
H37Rv_KO_MarP	0.916	1.762
hypoxia_3wks	0.451	-0.55
hypoxia_6wks	0.14	-0.606
glycerol	-0.686	-0.835
cholesterol	0.185	0.191
AJ	1.052	0.788
Bibs02	0.244	-1.115
Bibs02c	0.859	-0.744
BL6	0.242	0.351
BL6a	0.881	0.077
BXD01	0.844	0.125
BXD010	0.221	0.398
BXD011	0.583	-0.646
BXD03	-0.018	0.0
BXD04	0.354	-1.696
BXD05	-0.365	-1.417
BXD06	0.382	-0.768
BXD07	0.078	0.081
BXD08	0.625	0.866
BXD09	-0.279	-0.088
CAST	0.37	-1.168
CCcont	0.854	0.633
DS01	0.38	-1.809
DS02	-0.381	-0.23
DS04	0.302	0.898
DS0c	-0.464	-0.771
GP01	-1.322	0.431
GP02	-1.04	-1.081
GP0c	-0.711	0.194
NOD	1.199	-2.244
NZO	0.407	-1.611
PWK	1.024	-2.065
H37Rv_KO_CtpC	0.504	-0.067
H37Rv_KO_CtpD	0.715	0.394
H37Rv_KO_Rv1272	0.25	0.598
H37Rv_KO_SugABC	0.88	2.794
H37Rv_KO_MbtN	0.878	2.724
Trans05	0.21	-0.429
macrophage_unactivated	3.191	2.058
IL1	-0.3	0.059
Rapamycin	0.982	2.041
Tcell	0.779	0.326
GMCSF	0.584	0.412
IFNab	-0.305	-0.323
IFNg	0.059	2.111
IFNg_GMCSF1	0.977	2.008
Rv1432_day32	0.679	-0.643
Rv1565c_day32	0.716	2.167
secA2_input	-0.394	-0.354
delta_Rv3594	0.104	1.147
delta_Rv3717	-0.331	1.613
delta_Rv3811	0.819	1.628
delta_Rv0954	-0.205	-0.225
PonA1	0.539	0.037
EccD1_KO	0.187	-1.26
EspI_KO	0.163	-0.696
PE35_KO	-0.263	0.484
PPE68_KO	0.358	0.624
glycerol2	-0.562	-2.271
lignocerate	-0.226	-1.403
oleate	2.424	0.373
phosphatidylcholine	0.438	-1.207
acetate	1.044	1.237
glucAc	1.056	0.63
Rv0950ko	0.829	-0.793
Rv1096ko	-0.118	-0.29
Rv3684ko	0.684	0.406
delta_otsA_trehalose	0.858	1.938