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 Rv1773c/-

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

	Rv2585c/-	Rv1773c/-
Fe_supp_jason_reseq	0.229	-0.237
low_pH_jason_reseq	-1.047	-1.643
NO_jason_reseq	-0.798	-0.142
B6_jason_reseq	0.492	0.431
MHCII_jason_reseq	0.212	0.339
Isoniazid02	0.028	-0.08
Rifampicin4	0.615	0.352
Ethambutol3	0.924	0.331
Meropenem3	0.945	0.877
Vancomycin16	0.127	0.411
Rv2680_day32	0.151	-0.134
H37Rv_KO_MarP	-0.913	-0.656
hypoxia_3wks	-0.514	0.534
hypoxia_6wks	-0.505	-0.522
glycerol	-0.092	-0.054
cholesterol	0.846	-0.191
AJ	0.519	0.326
Bibs02	0.616	-1.025
Bibs02c	0.358	0.638
BL6	0.356	-2.082
BL6a	0.505	-0.017
BXD01	0.008	-0.133
BXD010	0.812	-0.082
BXD011	0.672	0.471
BXD03	0.487	-0.55
BXD04	0.17	-0.163
BXD05	0.746	-0.261
BXD06	0.481	0.08
BXD07	0.367	0.467
BXD08	0.305	0.0
BXD09	0.441	0.0
CAST	0.143	0.0
CCcont	-0.558	-2.36
DS01	0.217	-0.287
DS02	0.109	-0.745
DS04	0.617	0.901
DS0c	-0.099	-0.539
GP01	0.3	-0.615
GP02	0.091	-0.152
GP0c	-0.276	-0.295
NOD	0.628	0.801
NZO	0.298	-0.146
PWK	1.131	-0.279
H37Rv_KO_CtpC	-1.125	-0.537
H37Rv_KO_CtpD	-0.715	-0.142
H37Rv_KO_Rv1272	-0.278	-0.668
H37Rv_KO_SugABC	0.296	0.213
H37Rv_KO_MbtN	0.583	-0.292
Trans05	0.476	0.345
macrophage_unactivated	0.316	-0.524
IL1	-0.374	-0.653
Rapamycin	-0.246	0.752
Tcell	-0.632	-0.316
GMCSF	1.17	0.716
IFNab	0.351	0.363
IFNg	0.436	-0.043
IFNg_GMCSF1	1.144	-0.358
Rv1432_day32	1.643	0.802
Rv1565c_day32	0.433	0.477
secA2_input	-0.719	1.234
delta_Rv3594	0.805	1.475
delta_Rv3717	0.75	1.456
delta_Rv3811	0.516	0.5
delta_Rv0954	0.185	0.174
PonA1	0.369	1.26
EccD1_KO	0.628	1.552
EspI_KO	0.408	0.257
PE35_KO	-0.327	0.744
PPE68_KO	0.067	1.347
glycerol2	-0.342	-0.566
lignocerate	-0.704	-1.204
oleate	0.312	0.132
phosphatidylcholine	-0.668	-0.377
acetate	-0.432	-0.946
glucAc	-0.641	-1.891
Rv0950ko	0.576	1.484
Rv1096ko	1.27	1.885
Rv3684ko	1.238	1.834
delta_otsA_trehalose	-0.21	0.063