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 Rv2740/ephG

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

	Rv3165c/-	Rv2740/ephG
Fe_supp_jason_reseq	1.427	0.23
low_pH_jason_reseq	0.151	-0.579
NO_jason_reseq	-1.394	-0.735
B6_jason_reseq	0.333	-0.318
MHCII_jason_reseq	0.308	0.109
Isoniazid02	-0.295	-0.389
Rifampicin4	-0.309	-0.127
Ethambutol3	-0.652	-0.264
Meropenem3	0.024	-0.299
Vancomycin16	0.027	-0.631
Rv2680_day32	2.941	1.128
H37Rv_KO_MarP	0.684	-0.292
hypoxia_3wks	-0.327	-0.67
hypoxia_6wks	-0.503	-0.238
glycerol	0.718	-0.307
cholesterol	-0.506	-0.285
AJ	0.128	-0.183
Bibs02	-0.603	-0.585
Bibs02c	-1.291	-0.77
BL6	-0.342	-0.372
BL6a	0.161	0.281
BXD01	0.173	-0.235
BXD010	1.189	0.365
BXD011	0.478	0.709
BXD03	0.706	0.492
BXD04	0.913	-0.043
BXD05	-0.249	0.429
BXD06	0.829	0.072
BXD07	0.687	0.409
BXD08	0.143	0.616
BXD09	0.486	0.427
CAST	0.305	0.327
CCcont	0.661	-0.113
DS01	-0.32	-1.258
DS02	-2.757	-1.3
DS04	-1.577	0.066
DS0c	-0.715	-0.757
GP01	-0.715	0.403
GP02	-1.448	0.014
GP0c	-0.98	0.834
NOD	-0.199	-0.135
NZO	0.564	0.428
PWK	0.159	-0.675
H37Rv_KO_CtpC	-0.567	-0.598
H37Rv_KO_CtpD	1.921	0.479
H37Rv_KO_Rv1272	-0.082	0.103
H37Rv_KO_SugABC	-0.562	-2.096
H37Rv_KO_MbtN	0.877	-0.306
Trans05	1.323	0.053
macrophage_unactivated	1.266	-0.227
IL1	1.023	0.448
Rapamycin	0.657	0.672
Tcell	0.896	-0.635
GMCSF	1.766	0.734
IFNab	0.686	0.36
IFNg	1.406	0.222
IFNg_GMCSF1	0.0	-0.544
Rv1432_day32	-1.042	-0.327
Rv1565c_day32	1.567	0.826
secA2_input	0.18	-2.057
delta_Rv3594	-0.529	0.217
delta_Rv3717	-0.062	1.121
delta_Rv3811	0.568	-0.311
delta_Rv0954	-1.112	-1.55
PonA1	-1.602	0.187
EccD1_KO	0.414	1.217
EspI_KO	1.198	0.704
PE35_KO	0.84	0.933
PPE68_KO	0.771	1.094
glycerol2	0.717	0.404
lignocerate	1.492	0.479
oleate	-3.549	-0.713
phosphatidylcholine	0.378	0.625
acetate	1.197	0.356
glucAc	1.646	0.869
Rv0950ko	0.265	0.241
Rv1096ko	0.09	0.47
Rv3684ko	-0.049	-0.174
delta_otsA_trehalose	0.111	0.404