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 Rv3191c/-:

update plot	correlation	link to info on gene
Rv0399c/lpqK	(cc=0.6372)	info on Rv0399c/lpqK
Rv0940c/-	(cc=0.6145)	info on Rv0940c/-
Rv0160c/PE4	(cc=0.5738)	info on Rv0160c/PE4
Rv0456B/mazE1	(cc=0.5655)	info on Rv0456B/mazE1
Rv0932c/pstS2	(cc=0.5643)	info on Rv0932c/pstS2
Rv0342/iniA	(cc=0.5544)	info on Rv0342/iniA
Rv3233c/-	(cc=0.5308)	info on Rv3233c/-
Rv0115/hddA	(cc=0.5259)	info on Rv0115/hddA
Rv0413/mutT3	(cc=0.5236)	info on Rv0413/mutT3
Rv3365c/-	(cc=0.5124)	info on Rv3365c/-

Correlation of Rv3191c/- with Rv0160c/PE4

Normalized LFCs for Rv3191c/-:
(description and provenance of datasets)

	Rv3191c/-	Rv0160c/PE4
Fe_supp_jason_reseq	-0.024	0.011
low_pH_jason_reseq	-0.37	-0.07
NO_jason_reseq	-0.06	-0.11
B6_jason_reseq	0.47	0.416
MHCII_jason_reseq	0.448	0.302
Isoniazid02	-1.929	-1.8
Rifampicin4	0.625	0.208
Ethambutol3	-2.151	-0.931
Meropenem3	-0.361	-1.482
Vancomycin16	-0.907	-0.836
Rv2680_day32	0.071	-0.088
H37Rv_KO_MarP	0.409	0.748
hypoxia_3wks	-0.395	-0.191
hypoxia_6wks	-0.683	-0.175
glycerol	-0.176	0.471
cholesterol	-0.111	0.477
AJ	0.424	0.062
Bibs02	0.283	0.886
Bibs02c	0.57	0.584
BL6	-0.065	0.188
BL6a	0.716	0.375
BXD01	-0.167	-0.029
BXD010	0.178	-0.023
BXD011	0.436	0.241
BXD03	0.247	0.15
BXD04	0.221	0.354
BXD05	0.692	0.048
BXD06	0.452	0.316
BXD07	0.158	0.182
BXD08	0.253	0.338
BXD09	0.623	0.032
CAST	0.439	0.427
CCcont	0.151	-0.148
DS01	0.862	0.281
DS02	0.285	0.584
DS04	1.062	0.126
DS0c	0.292	-0.141
GP01	0.304	0.358
GP02	-0.484	1.382
GP0c	-0.684	-0.229
NOD	0.539	0.364
NZO	0.585	0.887
PWK	0.624	0.193
H37Rv_KO_CtpC	0.291	0.447
H37Rv_KO_CtpD	0.08	1.091
H37Rv_KO_Rv1272	0.547	1.015
H37Rv_KO_SugABC	0.526	0.612
H37Rv_KO_MbtN	0.429	0.485
Trans05	0.094	0.807
macrophage_unactivated	-0.174	-0.354
IL1	-0.047	0.098
Rapamycin	-0.169	0.239
Tcell	-0.606	-0.248
GMCSF	0.013	-0.09
IFNab	0.287	0.039
IFNg	0.102	0.294
IFNg_GMCSF1	0.33	0.085
Rv1432_day32	0.316	0.339
Rv1565c_day32	-0.591	0.458
secA2_input	-0.632	-0.333
delta_Rv3594	-0.08	-0.099
delta_Rv3717	-0.216	-0.239
delta_Rv3811	0.025	-0.223
delta_Rv0954	-0.26	0.358
PonA1	0.123	0.126
EccD1_KO	-0.217	-0.444
EspI_KO	0.371	0.074
PE35_KO	0.082	-0.446
PPE68_KO	-0.189	-0.221
glycerol2	-0.113	0.276
lignocerate	0.516	0.284
oleate	-0.413	0.216
phosphatidylcholine	0.084	0.387
acetate	0.57	0.083
glucAc	0.485	0.264
Rv0950ko	0.109	0.479
Rv1096ko	0.38	-0.13
Rv3684ko	0.301	0.134
delta_otsA_trehalose	-0.138	0.026