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 Rv2585c/-:

update plot	correlation	link to info on gene
Rv1035c/-	(cc=0.5171)	info on Rv1035c/-
Rv1773c/-	(cc=0.495)	info on Rv1773c/-
Rv0825c/-	(cc=0.4934)	info on Rv0825c/-
Rv1587c/-	(cc=0.4886)	info on Rv1587c/-
Rv0402c/mmpL1	(cc=0.4785)	info on Rv0402c/mmpL1
Rv3509c/ilvX	(cc=0.456)	info on Rv3509c/ilvX
Rv3649/-	(cc=0.4399)	info on Rv3649/-
Rv0646c/lipG	(cc=0.4322)	info on Rv0646c/lipG
Rv3695/-	(cc=0.4307)	info on Rv3695/-
Rv1767/-	(cc=0.4245)	info on Rv1767/-

Correlation of Rv2585c/- with Rv3509c/ilvX

Normalized LFCs for Rv2585c/-:
(description and provenance of datasets)

	Rv2585c/-	Rv3509c/ilvX
Fe_supp_jason_reseq	0.229	-0.081
low_pH_jason_reseq	-1.047	-0.375
NO_jason_reseq	-0.798	-0.257
B6_jason_reseq	0.492	0.367
MHCII_jason_reseq	0.212	0.362
Isoniazid02	0.028	1.147
Rifampicin4	0.615	0.55
Ethambutol3	0.924	0.899
Meropenem3	0.945	0.328
Vancomycin16	0.127	0.727
Rv2680_day32	0.151	-0.207
H37Rv_KO_MarP	-0.913	0.302
hypoxia_3wks	-0.514	-0.104
hypoxia_6wks	-0.505	-0.355
glycerol	-0.092	0.699
cholesterol	0.846	0.869
AJ	0.519	0.282
Bibs02	0.616	0.34
Bibs02c	0.358	0.45
BL6	0.356	0.502
BL6a	0.505	0.458
BXD01	0.008	0.516
BXD010	0.812	0.03
BXD011	0.672	0.68
BXD03	0.487	0.047
BXD04	0.17	0.408
BXD05	0.746	-0.064
BXD06	0.481	0.39
BXD07	0.367	0.174
BXD08	0.305	-0.011
BXD09	0.441	0.126
CAST	0.143	0.207
CCcont	-0.558	-0.281
DS01	0.217	0.409
DS02	0.109	0.28
DS04	0.617	0.835
DS0c	-0.099	0.594
GP01	0.3	-0.119
GP02	0.091	-0.02
GP0c	-0.276	-0.314
NOD	0.628	0.714
NZO	0.298	-0.048
PWK	1.131	0.415
H37Rv_KO_CtpC	-1.125	-0.006
H37Rv_KO_CtpD	-0.715	0.044
H37Rv_KO_Rv1272	-0.278	0.167
H37Rv_KO_SugABC	0.296	0.471
H37Rv_KO_MbtN	0.583	0.257
Trans05	0.476	0.094
macrophage_unactivated	0.316	-0.732
IL1	-0.374	-0.602
Rapamycin	-0.246	-0.868
Tcell	-0.632	-0.459
GMCSF	1.17	-0.428
IFNab	0.351	-0.856
IFNg	0.436	-0.877
IFNg_GMCSF1	1.144	0.226
Rv1432_day32	1.643	0.756
Rv1565c_day32	0.433	0.175
secA2_input	-0.719	-0.189
delta_Rv3594	0.805	0.783
delta_Rv3717	0.75	0.039
delta_Rv3811	0.516	0.651
delta_Rv0954	0.185	0.915
PonA1	0.369	0.743
EccD1_KO	0.628	0.072
EspI_KO	0.408	-0.125
PE35_KO	-0.327	-0.064
PPE68_KO	0.067	-0.384
glycerol2	-0.342	-0.174
lignocerate	-0.704	-0.358
oleate	0.312	-0.33
phosphatidylcholine	-0.668	-0.209
acetate	-0.432	-0.849
glucAc	-0.641	-0.171
Rv0950ko	0.576	0.612
Rv1096ko	1.27	0.953
Rv3684ko	1.238	0.4
delta_otsA_trehalose	-0.21	-0.209