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 Rv2853/PE_PGRS48:

update plot	correlation	link to info on gene
Rv2352c/PPE38	(cc=0.5372)	info on Rv2352c/PPE38
Rv3223c/sigH	(cc=0.5123)	info on Rv3223c/sigH
Rv3045/adhC	(cc=0.512)	info on Rv3045/adhC
Rv0940c/-	(cc=0.5046)	info on Rv0940c/-
Rv3142c/-	(cc=0.4999)	info on Rv3142c/-
Rv0072/-	(cc=0.4958)	info on Rv0072/-
Rv0160c/PE4	(cc=0.4773)	info on Rv0160c/PE4
Rv3814c/-	(cc=0.4734)	info on Rv3814c/-
Rv3397c/phyA	(cc=0.464)	info on Rv3397c/phyA
Rv1498c/-	(cc=0.4635)	info on Rv1498c/-

Correlation of Rv2853/PE_PGRS48 with Rv3045/adhC

Normalized LFCs for Rv2853/PE_PGRS48:
(description and provenance of datasets)

	Rv2853/PE_PGRS48	Rv3045/adhC
Fe_supp_jason_reseq	0.641	1.118
low_pH_jason_reseq	-0.269	1.246
NO_jason_reseq	0.06	-1.987
B6_jason_reseq	-0.414	-0.069
MHCII_jason_reseq	-0.425	-0.36
Isoniazid02	-0.965	-2.177
Rifampicin4	0.095	-0.65
Ethambutol3	0.258	-0.829
Meropenem3	-1.22	-2.737
Vancomycin16	-0.788	-2.43
Rv2680_day32	-0.666	0.379
H37Rv_KO_MarP	-0.206	0.629
hypoxia_3wks	-0.335	-4.115
hypoxia_6wks	-0.72	-2.023
glycerol	0.587	1.36
cholesterol	0.29	0.976
AJ	0.881	0.176
Bibs02	0.199	-0.189
Bibs02c	0.273	0.844
BL6	0.488	1.377
BL6a	0.462	0.904
BXD01	0.269	1.168
BXD010	0.324	0.752
BXD011	0.519	1.184
BXD03	0.679	1.321
BXD04	0.39	1.514
BXD05	0.242	1.554
BXD06	0.507	1.018
BXD07	0.494	1.159
BXD08	0.497	1.052
BXD09	0.213	1.65
CAST	0.475	0.454
CCcont	0.574	1.772
DS01	0.24	1.107
DS02	-0.408	0.498
DS04	0.623	0.981
DS0c	0.0	1.07
GP01	-0.129	-0.622
GP02	0.108	-0.726
GP0c	-0.182	0.169
NOD	0.61	0.652
NZO	0.344	0.259
PWK	0.078	-0.161
H37Rv_KO_CtpC	0.235	0.612
H37Rv_KO_CtpD	0.174	1.994
H37Rv_KO_Rv1272	0.811	1.344
H37Rv_KO_SugABC	-0.084	1.218
H37Rv_KO_MbtN	0.659	-0.107
Trans05	1.389	0.361
macrophage_unactivated	-0.262	2.001
IL1	-0.196	-0.469
Rapamycin	-0.227	0.832
Tcell	-0.381	0.463
GMCSF	-0.404	0.129
IFNab	-0.435	0.629
IFNg	-0.043	-0.497
IFNg_GMCSF1	-0.182	-0.079
Rv1432_day32	-0.018	-1.061
Rv1565c_day32	1.512	0.81
secA2_input	-0.747	0.534
delta_Rv3594	-0.017	0.298
delta_Rv3717	0.169	0.279
delta_Rv3811	0.271	0.785
delta_Rv0954	-0.42	-0.125
PonA1	0.667	0.172
EccD1_KO	0.0	0.217
EspI_KO	0.493	0.704
PE35_KO	0.175	-0.242
PPE68_KO	-0.134	-0.176
glycerol2	-0.078	0.163
lignocerate	0.444	0.688
oleate	-0.016	-0.106
phosphatidylcholine	0.245	0.468
acetate	0.053	-0.081
glucAc	0.15	0.496
Rv0950ko	0.283	0.199
Rv1096ko	0.654	0.82
Rv3684ko	0.845	1.281
delta_otsA_trehalose	0.127	-1.408