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 Rv3165c/-:

update plot	correlation	link to info on gene
Rv2740/ephG	(cc=0.4995)	info on Rv2740/ephG
Rv0769/-	(cc=0.4668)	info on Rv0769/-
Rv0499/-	(cc=0.4548)	info on Rv0499/-
Rv1499/-	(cc=0.4524)	info on Rv1499/-
Rv2308/-	(cc=0.4365)	info on Rv2308/-
Rv2060/-	(cc=0.4245)	info on Rv2060/-
Rv1219c/-	(cc=0.4109)	info on Rv1219c/-
Rv3553/-	(cc=0.4092)	info on Rv3553/-
Rv1082/mca	(cc=0.4085)	info on Rv1082/mca
Rv2437/-	(cc=0.4063)	info on Rv2437/-

Correlation of Rv3165c/- with Rv2437/-

Normalized LFCs for Rv3165c/-:
(description and provenance of datasets)

	Rv3165c/-	Rv2437/-
Fe_supp_jason_reseq	1.427	1.959
low_pH_jason_reseq	0.151	3.085
NO_jason_reseq	-1.394	-1.452
B6_jason_reseq	0.333	1.783
MHCII_jason_reseq	0.308	0.0
Isoniazid02	-0.295	1.534
Rifampicin4	-0.309	0.452
Ethambutol3	-0.652	-0.261
Meropenem3	0.024	0.337
Vancomycin16	0.027	0.393
Rv2680_day32	2.941	1.029
H37Rv_KO_MarP	0.684	1.6
hypoxia_3wks	-0.327	0.379
hypoxia_6wks	-0.503	0.253
glycerol	0.718	0.342
cholesterol	-0.506	0.826
AJ	0.128	-2.039
Bibs02	-0.603	1.521
Bibs02c	-1.291	-0.477
BL6	-0.342	0.234
BL6a	0.161	1.129
BXD01	0.173	0.773
BXD010	1.189	1.088
BXD011	0.478	1.15
BXD03	0.706	1.534
BXD04	0.913	1.707
BXD05	-0.249	0.904
BXD06	0.829	1.671
BXD07	0.687	1.44
BXD08	0.143	0.591
BXD09	0.486	1.244
CAST	0.305	-0.584
CCcont	0.661	0.643
DS01	-0.32	-0.662
DS02	-2.757	-1.207
DS04	-1.577	-2.112
DS0c	-0.715	-1.128
GP01	-0.715	-0.916
GP02	-1.448	-1.124
GP0c	-0.98	-1.272
NOD	-0.199	-0.753
NZO	0.564	-1.037
PWK	0.159	0.818
H37Rv_KO_CtpC	-0.567	-1.211
H37Rv_KO_CtpD	1.921	-0.462
H37Rv_KO_Rv1272	-0.082	1.092
H37Rv_KO_SugABC	-0.562	-1.415
H37Rv_KO_MbtN	0.877	0.341
Trans05	1.323	0.393
macrophage_unactivated	1.266	0.413
IL1	1.023	1.0
Rapamycin	0.657	0.227
Tcell	0.896	0.241
GMCSF	1.766	0.594
IFNab	0.686	1.596
IFNg	1.406	0.668
IFNg_GMCSF1	0.0	1.059
Rv1432_day32	-1.042	0.1
Rv1565c_day32	1.567	1.14
secA2_input	0.18	-0.443
delta_Rv3594	-0.529	-0.558
delta_Rv3717	-0.062	-0.872
delta_Rv3811	0.568	-0.507
delta_Rv0954	-1.112	-0.935
PonA1	-1.602	-0.286
EccD1_KO	0.414	-0.329
EspI_KO	1.198	1.044
PE35_KO	0.84	2.576
PPE68_KO	0.771	2.598
glycerol2	0.717	0.413
lignocerate	1.492	0.072
oleate	-3.549	0.332
phosphatidylcholine	0.378	0.508
acetate	1.197	-0.643
glucAc	1.646	-0.501
Rv0950ko	0.265	-1.251
Rv1096ko	0.09	-0.947
Rv3684ko	-0.049	-2.345
delta_otsA_trehalose	0.111	-0.176