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 Rv0342/iniA:

update plot	correlation	link to info on gene
Rv0968/-	(cc=0.6427)	info on Rv0968/-
Rv2679/echA15	(cc=0.6294)	info on Rv2679/echA15
Rv3329/-	(cc=0.6205)	info on Rv3329/-
Rv0160c/PE4	(cc=0.6199)	info on Rv0160c/PE4
Rv0940c/-	(cc=0.5886)	info on Rv0940c/-
Rv3312c/-	(cc=0.587)	info on Rv3312c/-
Rv3508/PE_PGRS54	(cc=0.5785)	info on Rv3508/PE_PGRS54
Rv0399c/lpqK	(cc=0.578)	info on Rv0399c/lpqK
Rv0115/hddA	(cc=0.5757)	info on Rv0115/hddA
Rv3406/-	(cc=0.5703)	info on Rv3406/-

Correlation of Rv0342/iniA with Rv0940c/-

Normalized LFCs for Rv0342/iniA:
(description and provenance of datasets)

	Rv0342/iniA	Rv0940c/-
Fe_supp_jason_reseq	-0.583	-0.546
low_pH_jason_reseq	-0.781	-0.445
NO_jason_reseq	0.795	0.126
B6_jason_reseq	0.252	-0.989
MHCII_jason_reseq	0.5	-0.421
Isoniazid02	-2.219	-4.434
Rifampicin4	0.33	0.482
Ethambutol3	-2.382	-3.779
Meropenem3	-1.242	-4.315
Vancomycin16	-0.7	-1.417
Rv2680_day32	-0.18	0.113
H37Rv_KO_MarP	0.368	-0.255
hypoxia_3wks	-0.112	-0.841
hypoxia_6wks	-0.535	0.754
glycerol	0.532	0.316
cholesterol	0.446	0.168
AJ	0.765	0.57
Bibs02	0.009	-1.015
Bibs02c	-0.656	-0.311
BL6	-0.238	0.847
BL6a	-0.331	0.284
BXD01	-0.119	0.715
BXD010	-0.076	1.34
BXD011	0.106	0.711
BXD03	0.207	0.332
BXD04	0.058	1.328
BXD05	0.414	0.263
BXD06	0.387	1.327
BXD07	-0.097	1.065
BXD08	0.05	0.743
BXD09	-0.062	0.917
CAST	0.322	0.754
CCcont	-0.276	1.0
DS01	-0.477	0.719
DS02	0.221	0.736
DS04	-0.646	1.234
DS0c	0.489	-0.102
GP01	0.527	0.312
GP02	0.28	-0.803
GP0c	0.068	-0.446
NOD	0.042	0.469
NZO	0.549	1.52
PWK	0.517	0.254
H37Rv_KO_CtpC	0.207	0.585
H37Rv_KO_CtpD	-0.05	0.147
H37Rv_KO_Rv1272	0.588	1.095
H37Rv_KO_SugABC	0.512	0.088
H37Rv_KO_MbtN	0.24	0.528
Trans05	0.793	0.895
macrophage_unactivated	-0.429	-0.082
IL1	-0.35	-0.317
Rapamycin	0.147	-0.16
Tcell	-0.081	0.205
GMCSF	-0.312	-0.137
IFNab	0.239	-1.868
IFNg	-0.155	-1.446
IFNg_GMCSF1	0.176	-1.197
Rv1432_day32	0.186	1.249
Rv1565c_day32	0.39	0.692
secA2_input	0.564	-0.863
delta_Rv3594	-0.509	-0.571
delta_Rv3717	-0.352	-0.691
delta_Rv3811	-0.495	-0.663
delta_Rv0954	-0.351	-1.222
PonA1	-0.163	-1.092
EccD1_KO	0.023	0.089
EspI_KO	-0.522	1.087
PE35_KO	-0.292	0.522
PPE68_KO	-0.659	0.65
glycerol2	0.423	1.375
lignocerate	0.66	2.046
oleate	0.461	-0.469
phosphatidylcholine	0.391	1.426
acetate	0.632	1.812
glucAc	0.381	1.613
Rv0950ko	0.286	-0.482
Rv1096ko	0.531	-0.115
Rv3684ko	0.311	-0.524
delta_otsA_trehalose	1.165	0.254