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 Rv1749c/-:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.5462)	info on Rv1526c/-
Rv3213c/-	(cc=0.5165)	info on Rv3213c/-
Rv3429/PPE59	(cc=0.5102)	info on Rv3429/PPE59
Rv1583c/-	(cc=0.5057)	info on Rv1583c/-
Rv0028/-	(cc=0.5054)	info on Rv0028/-
Rv0042c/-	(cc=0.4944)	info on Rv0042c/-
Rv3217c/-	(cc=0.4881)	info on Rv3217c/-
Rv2237/-	(cc=0.4811)	info on Rv2237/-
Rv1981c/nrdF1	(cc=0.4701)	info on Rv1981c/nrdF1
Rv0432/sodC	(cc=0.47)	info on Rv0432/sodC

Correlation of Rv1749c/- with Rv2237/-

Normalized LFCs for Rv1749c/-:
(description and provenance of datasets)

	Rv1749c/-	Rv2237/-
Fe_supp_jason_reseq	0.218	0.23
low_pH_jason_reseq	0.11	-0.676
NO_jason_reseq	0.278	-0.302
B6_jason_reseq	-0.818	-0.548
MHCII_jason_reseq	-0.357	0.053
Isoniazid02	-0.445	0.397
Rifampicin4	-0.542	-0.674
Ethambutol3	-0.158	-0.32
Meropenem3	0.097	-0.231
Vancomycin16	-0.366	-0.064
Rv2680_day32	-1.062	0.594
H37Rv_KO_MarP	-0.278	0.254
hypoxia_3wks	-0.666	-0.762
hypoxia_6wks	-0.714	-0.814
glycerol	-1.006	0.12
cholesterol	-0.46	0.447
AJ	-0.05	0.235
Bibs02	-0.378	0.013
Bibs02c	-0.139	-0.52
BL6	1.067	0.847
BL6a	0.242	0.201
BXD01	0.192	-0.443
BXD010	0.787	0.241
BXD011	0.486	0.53
BXD03	-0.291	-0.725
BXD04	-0.064	-0.369
BXD05	0.642	0.165
BXD06	0.111	0.284
BXD07	0.57	-0.399
BXD08	0.547	-0.084
BXD09	0.268	0.228
CAST	-0.118	-0.464
CCcont	0.844	1.023
DS01	0.149	0.399
DS02	0.334	1.096
DS04	0.537	0.45
DS0c	0.223	0.129
GP01	1.649	0.95
GP02	0.6	-0.93
GP0c	1.255	0.356
NOD	0.094	-0.371
NZO	-0.276	0.35
PWK	-0.207	-0.625
H37Rv_KO_CtpC	-0.791	-0.013
H37Rv_KO_CtpD	0.967	-0.315
H37Rv_KO_Rv1272	-0.149	-0.297
H37Rv_KO_SugABC	1.05	0.422
H37Rv_KO_MbtN	-0.061	0.656
Trans05	0.913	0.02
macrophage_unactivated	-0.196	0.076
IL1	-0.43	0.24
Rapamycin	-0.301	-0.11
Tcell	-0.029	0.339
GMCSF	0.327	-0.261
IFNab	0.178	0.0
IFNg	0.024	0.644
IFNg_GMCSF1	0.795	0.628
Rv1432_day32	0.314	-0.01
Rv1565c_day32	-2.443	-0.479
secA2_input	0.36	0.252
delta_Rv3594	0.45	1.153
delta_Rv3717	-0.011	1.364
delta_Rv3811	0.109	0.772
delta_Rv0954	0.205	0.16
PonA1	0.749	0.84
EccD1_KO	-0.118	0.53
EspI_KO	-0.06	0.91
PE35_KO	-0.528	0.858
PPE68_KO	-0.378	0.733
glycerol2	0.668	1.88
lignocerate	1.269	2.527
oleate	-0.123	-1.276
phosphatidylcholine	0.859	2.426
acetate	1.322	2.72
glucAc	1.325	2.503
Rv0950ko	0.289	0.0
Rv1096ko	-0.642	-0.078
Rv3684ko	-1.002	-0.819
delta_otsA_trehalose	0.706	-0.569