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 Rv1634/-:

update plot	correlation	link to info on gene
Rv0492c/-	(cc=0.5131)	info on Rv0492c/-
Rv2031c/hspX	(cc=0.4971)	info on Rv2031c/hspX
Rv2265/-	(cc=0.4764)	info on Rv2265/-
Rv2693c/-	(cc=0.4685)	info on Rv2693c/-
Rv1140/-	(cc=0.455)	info on Rv1140/-
Rv3433c/-	(cc=0.4428)	info on Rv3433c/-
Rv0344c/lpqJ	(cc=0.44)	info on Rv0344c/lpqJ
Rv2030c/-	(cc=0.4282)	info on Rv2030c/-
Rv2340c/PE_PGRS39	(cc=0.4236)	info on Rv2340c/PE_PGRS39
Rv1745c/idi	(cc=0.415)	info on Rv1745c/idi

Correlation of Rv1634/- with Rv2265/-

Normalized LFCs for Rv1634/-:
(description and provenance of datasets)

	Rv1634/-	Rv2265/-
Fe_supp_jason_reseq	0.385	-0.057
low_pH_jason_reseq	-0.761	-0.92
NO_jason_reseq	0.391	-0.312
B6_jason_reseq	-0.282	-0.36
MHCII_jason_reseq	0.184	0.698
Isoniazid02	1.455	1.087
Rifampicin4	0.133	0.108
Ethambutol3	1.115	1.246
Meropenem3	0.253	0.083
Vancomycin16	0.215	0.133
Rv2680_day32	1.267	-0.079
H37Rv_KO_MarP	-0.034	1.009
hypoxia_3wks	-2.129	-1.12
hypoxia_6wks	-1.796	-0.967
glycerol	0.856	0.276
cholesterol	0.866	0.398
AJ	-0.027	0.148
Bibs02	-0.114	1.082
Bibs02c	0.711	1.29
BL6	0.005	0.405
BL6a	0.376	0.418
BXD01	-0.081	-0.615
BXD010	-0.458	0.315
BXD011	-0.415	-0.989
BXD03	-0.021	0.068
BXD04	0.099	-0.028
BXD05	-0.079	0.457
BXD06	-0.323	-0.471
BXD07	0.016	-0.062
BXD08	-0.046	-0.34
BXD09	-0.193	-0.799
CAST	-0.514	-0.085
CCcont	-0.457	-0.261
DS01	0.493	0.352
DS02	1.267	-0.049
DS04	0.476	0.7
DS0c	0.952	0.24
GP01	0.313	0.978
GP02	0.04	0.309
GP0c	0.357	0.591
NOD	0.075	-0.353
NZO	-0.257	0.841
PWK	-0.304	0.529
H37Rv_KO_CtpC	0.83	-0.012
H37Rv_KO_CtpD	0.37	0.098
H37Rv_KO_Rv1272	0.626	-0.296
H37Rv_KO_SugABC	0.873	0.509
H37Rv_KO_MbtN	0.205	0.242
Trans05	0.7	-0.029
macrophage_unactivated	0.489	-0.445
IL1	-0.475	0.033
Rapamycin	-0.451	-0.433
Tcell	-0.818	-0.036
GMCSF	0.494	-0.306
IFNab	-0.342	-0.314
IFNg	-0.267	-0.345
IFNg_GMCSF1	-0.019	-0.107
Rv1432_day32	0.086	-0.18
Rv1565c_day32	1.668	0.644
secA2_input	-0.487	0.338
delta_Rv3594	0.057	-0.255
delta_Rv3717	0.424	0.537
delta_Rv3811	-0.144	-0.149
delta_Rv0954	-0.287	0.302
PonA1	0.255	0.028
EccD1_KO	0.076	-1.075
EspI_KO	-0.051	-0.288
PE35_KO	-0.613	-0.175
PPE68_KO	-0.637	-0.563
glycerol2	-0.332	0.249
lignocerate	0.142	0.703
oleate	0.625	0.367
phosphatidylcholine	0.253	0.279
acetate	-0.512	0.527
glucAc	-0.368	0.723
Rv0950ko	0.461	0.44
Rv1096ko	0.03	0.13
Rv3684ko	-0.262	0.449
delta_otsA_trehalose	-1.008	-0.34