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 Rv3922c/-:

update plot	correlation	link to info on gene
Rv0149/-	(cc=0.592)	info on Rv0149/-
Rv1633/uvrB	(cc=0.5692)	info on Rv1633/uvrB
Rv0184/-	(cc=0.5587)	info on Rv0184/-
Rv2922c/smc	(cc=0.5558)	info on Rv2922c/smc
Rv3050c/-	(cc=0.5438)	info on Rv3050c/-
Rv0822c/-	(cc=0.5346)	info on Rv0822c/-
Rv2179c/-	(cc=0.5317)	info on Rv2179c/-
Rv3218/-	(cc=0.517)	info on Rv3218/-
Rv1059/-	(cc=0.5134)	info on Rv1059/-
Rv0930/pstA1	(cc=0.5125)	info on Rv0930/pstA1

Correlation of Rv3922c/- with Rv0184/-

Normalized LFCs for Rv3922c/-:
(description and provenance of datasets)

	Rv3922c/-	Rv0184/-
Fe_supp_jason_reseq	0.36	-0.481
low_pH_jason_reseq	0.763	0.468
NO_jason_reseq	0.41	0.425
B6_jason_reseq	-0.538	-0.988
MHCII_jason_reseq	-1.397	-0.623
Isoniazid02	0.0	0.269
Rifampicin4	-1.072	-0.639
Ethambutol3	-0.146	1.13
Meropenem3	3.541	1.313
Vancomycin16	-1.475	-0.881
Rv2680_day32	-0.6	0.849
H37Rv_KO_MarP	-0.501	0.502
hypoxia_3wks	-0.961	-1.017
hypoxia_6wks	-1.462	-0.666
glycerol	0.41	1.448
cholesterol	-0.112	0.083
AJ	0.324	-0.176
Bibs02	1.519	1.351
Bibs02c	-0.336	0.835
BL6	2.447	0.719
BL6a	1.36	1.376
BXD01	1.838	1.114
BXD010	1.265	1.26
BXD011	1.398	1.352
BXD03	1.078	0.919
BXD04	0.942	1.05
BXD05	0.975	0.715
BXD06	1.016	1.159
BXD07	1.367	1.212
BXD08	1.493	1.846
BXD09	1.018	0.932
CAST	1.396	2.087
CCcont	1.43	0.487
DS01	0.881	1.234
DS02	0.304	0.996
DS04	1.093	0.436
DS0c	1.315	0.435
GP01	1.518	0.0
GP02	0.432	0.42
GP0c	2.402	0.942
NOD	0.314	0.28
NZO	0.0	0.376
PWK	0.142	0.32
H37Rv_KO_CtpC	0.519	-0.149
H37Rv_KO_CtpD	1.052	-0.793
H37Rv_KO_Rv1272	-0.356	0.23
H37Rv_KO_SugABC	1.276	1.122
H37Rv_KO_MbtN	0.487	1.02
Trans05	2.815	1.461
macrophage_unactivated	0.193	0.562
IL1	0.525	1.382
Rapamycin	-1.608	0.902
Tcell	1.404	1.476
GMCSF	1.912	1.605
IFNab	0.535	0.396
IFNg	0.759	0.35
IFNg_GMCSF1	0.556	1.54
Rv1432_day32	1.451	0.926
Rv1565c_day32	-0.49	0.049
secA2_input	0.916	-0.08
delta_Rv3594	0.815	0.061
delta_Rv3717	0.413	0.099
delta_Rv3811	0.045	0.309
delta_Rv0954	0.391	-1.07
PonA1	0.54	0.27
EccD1_KO	-0.743	0.237
EspI_KO	1.05	-0.034
PE35_KO	-1.257	-0.257
PPE68_KO	0.0	0.483
glycerol2	-1.279	-0.132
lignocerate	-1.583	-0.095
oleate	-1.55	0.224
phosphatidylcholine	-2.158	-0.373
acetate	-0.499	-0.239
glucAc	-0.944	0.149
Rv0950ko	-0.286	0.832
Rv1096ko	1.134	1.028
Rv3684ko	0.478	2.351
delta_otsA_trehalose	0.739	-0.57