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 Rv3695/-

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

	Rv2585c/-	Rv3695/-
Fe_supp_jason_reseq	0.229	-0.86
low_pH_jason_reseq	-1.047	-2.494
NO_jason_reseq	-0.798	-1.788
B6_jason_reseq	0.492	-1.093
MHCII_jason_reseq	0.212	-0.8
Isoniazid02	0.028	-0.787
Rifampicin4	0.615	0.119
Ethambutol3	0.924	0.829
Meropenem3	0.945	0.603
Vancomycin16	0.127	0.194
Rv2680_day32	0.151	-0.154
H37Rv_KO_MarP	-0.913	-1.541
hypoxia_3wks	-0.514	0.163
hypoxia_6wks	-0.505	0.572
glycerol	-0.092	-1.725
cholesterol	0.846	-0.747
AJ	0.519	0.993
Bibs02	0.616	-0.384
Bibs02c	0.358	1.558
BL6	0.356	1.26
BL6a	0.505	1.501
BXD01	0.008	0.908
BXD010	0.812	0.548
BXD011	0.672	-0.332
BXD03	0.487	1.2
BXD04	0.17	0.945
BXD05	0.746	0.67
BXD06	0.481	0.351
BXD07	0.367	0.568
BXD08	0.305	0.186
BXD09	0.441	0.277
CAST	0.143	0.859
CCcont	-0.558	0.793
DS01	0.217	-0.7
DS02	0.109	-1.122
DS04	0.617	0.849
DS0c	-0.099	-0.933
GP01	0.3	1.207
GP02	0.091	0.442
GP0c	-0.276	1.297
NOD	0.628	-0.625
NZO	0.298	1.348
PWK	1.131	2.835
H37Rv_KO_CtpC	-1.125	1.252
H37Rv_KO_CtpD	-0.715	-0.398
H37Rv_KO_Rv1272	-0.278	0.146
H37Rv_KO_SugABC	0.296	1.541
H37Rv_KO_MbtN	0.583	1.843
Trans05	0.476	-0.703
macrophage_unactivated	0.316	-0.382
IL1	-0.374	0.184
Rapamycin	-0.246	-0.479
Tcell	-0.632	-0.212
GMCSF	1.17	-0.084
IFNab	0.351	1.584
IFNg	0.436	0.192
IFNg_GMCSF1	1.144	0.842
Rv1432_day32	1.643	-0.819
Rv1565c_day32	0.433	-0.746
secA2_input	-0.719	-2.552
delta_Rv3594	0.805	1.231
delta_Rv3717	0.75	0.714
delta_Rv3811	0.516	0.526
delta_Rv0954	0.185	0.18
PonA1	0.369	1.809
EccD1_KO	0.628	1.02
EspI_KO	0.408	-0.245
PE35_KO	-0.327	0.236
PPE68_KO	0.067	0.506
glycerol2	-0.342	-1.103
lignocerate	-0.704	-0.306
oleate	0.312	0.839
phosphatidylcholine	-0.668	-0.496
acetate	-0.432	0.068
glucAc	-0.641	-0.089
Rv0950ko	0.576	0.582
Rv1096ko	1.27	1.99
Rv3684ko	1.238	2.109
delta_otsA_trehalose	-0.21	-0.457