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 Rv3522/ltp4:

update plot	correlation	link to info on gene
Rv0070c/glyA2	(cc=0.5126)	info on Rv0070c/glyA2
Rv3088/tgs4	(cc=0.4952)	info on Rv3088/tgs4
Rv0858c/dapC	(cc=0.4924)	info on Rv0858c/dapC
Rv2748c/ftsK	(cc=0.4866)	info on Rv2748c/ftsK
Rv3077/-	(cc=0.4833)	info on Rv3077/-
Rv1366/-	(cc=0.4772)	info on Rv1366/-
Rv1489A/-	(cc=0.4742)	info on Rv1489A/-
Rv0134/ephF	(cc=0.473)	info on Rv0134/ephF
Rv3081/-	(cc=0.4624)	info on Rv3081/-
Rv0312/-	(cc=0.4533)	info on Rv0312/-

Correlation of Rv3522/ltp4 with Rv0858c/dapC

Normalized LFCs for Rv3522/ltp4:
(description and provenance of datasets)

	Rv3522/ltp4	Rv0858c/dapC
Fe_supp_jason_reseq	-0.17	-0.704
low_pH_jason_reseq	-0.097	-0.611
NO_jason_reseq	0.289	-0.249
B6_jason_reseq	-0.446	-0.034
MHCII_jason_reseq	0.866	0.309
Isoniazid02	-0.511	0.418
Rifampicin4	-0.068	0.471
Ethambutol3	0.068	-0.049
Meropenem3	0.159	0.344
Vancomycin16	-0.202	0.761
Rv2680_day32	-1.285	-0.636
H37Rv_KO_MarP	0.134	0.172
hypoxia_3wks	-0.678	0.638
hypoxia_6wks	-0.046	0.171
glycerol	-0.508	0.202
cholesterol	-0.439	0.014
AJ	-0.682	0.25
Bibs02	-0.203	0.0
Bibs02c	0.546	0.039
BL6	-0.62	0.157
BL6a	0.495	0.198
BXD01	-0.163	0.012
BXD010	0.202	0.182
BXD011	-0.208	-0.359
BXD03	0.433	-0.12
BXD04	-0.385	0.176
BXD05	0.476	0.145
BXD06	-0.009	0.386
BXD07	0.31	0.161
BXD08	-0.081	-0.133
BXD09	-0.451	0.513
CAST	-0.759	-0.404
CCcont	0.114	0.237
DS01	-0.315	0.698
DS02	-0.493	0.38
DS04	0.818	1.02
DS0c	0.097	-0.063
GP01	0.451	0.491
GP02	0.793	0.675
GP0c	0.565	0.966
NOD	-0.952	-0.021
NZO	0.14	0.795
PWK	-0.013	-0.301
H37Rv_KO_CtpC	-1.024	0.647
H37Rv_KO_CtpD	-0.537	-0.618
H37Rv_KO_Rv1272	0.576	0.366
H37Rv_KO_SugABC	0.481	0.593
H37Rv_KO_MbtN	-0.285	-0.828
Trans05	-0.145	0.909
macrophage_unactivated	-0.436	0.114
IL1	-0.86	0.415
Rapamycin	-0.276	-0.037
Tcell	-0.036	-0.039
GMCSF	0.114	-0.066
IFNab	0.033	0.62
IFNg	-0.433	0.489
IFNg_GMCSF1	0.427	1.027
Rv1432_day32	-0.353	0.231
Rv1565c_day32	0.829	0.698
secA2_input	0.845	0.637
delta_Rv3594	-1.196	-0.217
delta_Rv3717	-0.95	-0.097
delta_Rv3811	-0.761	-0.617
delta_Rv0954	-0.509	0.167
PonA1	-0.233	0.492
EccD1_KO	-0.194	0.569
EspI_KO	0.046	-0.442
PE35_KO	-0.569	-0.531
PPE68_KO	-0.595	0.077
glycerol2	0.947	0.524
lignocerate	1.382	0.951
oleate	0.0	-0.485
phosphatidylcholine	1.098	0.847
acetate	1.273	0.542
glucAc	0.994	0.925
Rv0950ko	1.055	0.482
Rv1096ko	0.651	1.677
Rv3684ko	0.707	1.385
delta_otsA_trehalose	0.066	0.286