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 Rv0769/-

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

	Rv3165c/-	Rv0769/-
Fe_supp_jason_reseq	1.427	0.612
low_pH_jason_reseq	0.151	-0.53
NO_jason_reseq	-1.394	0.722
B6_jason_reseq	0.333	0.533
MHCII_jason_reseq	0.308	0.951
Isoniazid02	-0.295	-0.356
Rifampicin4	-0.309	-1.151
Ethambutol3	-0.652	0.131
Meropenem3	0.024	0.47
Vancomycin16	0.027	-0.523
Rv2680_day32	2.941	0.816
H37Rv_KO_MarP	0.684	0.217
hypoxia_3wks	-0.327	-0.439
hypoxia_6wks	-0.503	0.188
glycerol	0.718	-0.461
cholesterol	-0.506	0.061
AJ	0.128	-0.264
Bibs02	-0.603	-0.596
Bibs02c	-1.291	-1.449
BL6	-0.342	0.267
BL6a	0.161	0.184
BXD01	0.173	0.027
BXD010	1.189	0.144
BXD011	0.478	0.191
BXD03	0.706	0.241
BXD04	0.913	0.733
BXD05	-0.249	0.713
BXD06	0.829	0.766
BXD07	0.687	0.284
BXD08	0.143	0.722
BXD09	0.486	1.099
CAST	0.305	0.741
CCcont	0.661	0.838
DS01	-0.32	-0.051
DS02	-2.757	-0.328
DS04	-1.577	-1.226
DS0c	-0.715	-0.3
GP01	-0.715	-0.84
GP02	-1.448	-0.146
GP0c	-0.98	-0.297
NOD	-0.199	0.024
NZO	0.564	-0.251
PWK	0.159	0.35
H37Rv_KO_CtpC	-0.567	1.105
H37Rv_KO_CtpD	1.921	-0.239
H37Rv_KO_Rv1272	-0.082	-0.127
H37Rv_KO_SugABC	-0.562	-0.1
H37Rv_KO_MbtN	0.877	-0.069
Trans05	1.323	-0.028
macrophage_unactivated	1.266	0.499
IL1	1.023	0.605
Rapamycin	0.657	0.187
Tcell	0.896	0.033
GMCSF	1.766	0.214
IFNab	0.686	0.508
IFNg	1.406	0.216
IFNg_GMCSF1	0.0	0.698
Rv1432_day32	-1.042	0.0
Rv1565c_day32	1.567	0.235
secA2_input	0.18	0.668
delta_Rv3594	-0.529	0.583
delta_Rv3717	-0.062	0.424
delta_Rv3811	0.568	-0.271
delta_Rv0954	-1.112	-0.504
PonA1	-1.602	-0.479
EccD1_KO	0.414	0.138
EspI_KO	1.198	1.708
PE35_KO	0.84	0.522
PPE68_KO	0.771	0.806
glycerol2	0.717	0.705
lignocerate	1.492	1.109
oleate	-3.549	-0.793
phosphatidylcholine	0.378	0.392
acetate	1.197	1.084
glucAc	1.646	1.095
Rv0950ko	0.265	0.199
Rv1096ko	0.09	0.962
Rv3684ko	-0.049	1.176
delta_otsA_trehalose	0.111	2.083