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 Rv3590c/PE_PGRS58:

update plot	correlation	link to info on gene
Rv2490c/PE_PGRS43	(cc=0.6343)	info on Rv2490c/PE_PGRS43
Rv1818c/PE_PGRS33	(cc=0.6148)	info on Rv1818c/PE_PGRS33
Rv0747/PE_PGRS10	(cc=0.6047)	info on Rv0747/PE_PGRS10
Rv2340c/PE_PGRS39	(cc=0.6006)	info on Rv2340c/PE_PGRS39
Rv2236c/cobD	(cc=0.5915)	info on Rv2236c/cobD
Rv3612c/-	(cc=0.5689)	info on Rv3612c/-
Rv2559c/-	(cc=0.5624)	info on Rv2559c/-
Rv0836c/-	(cc=0.5579)	info on Rv0836c/-
Rv0614/-	(cc=0.5431)	info on Rv0614/-
Rv3897c/-	(cc=0.5378)	info on Rv3897c/-

Correlation of Rv3590c/PE_PGRS58 with Rv2340c/PE_PGRS39

Normalized LFCs for Rv3590c/PE_PGRS58:
(description and provenance of datasets)

	Rv3590c/PE_PGRS58	Rv2340c/PE_PGRS39
Fe_supp_jason_reseq	-0.863	-0.063
low_pH_jason_reseq	0.0	-0.452
NO_jason_reseq	0.0	-0.417
B6_jason_reseq	0.714	0.657
MHCII_jason_reseq	0.27	0.619
Isoniazid02	0.79	1.157
Rifampicin4	1.47	0.485
Ethambutol3	0.728	1.549
Meropenem3	0.096	0.728
Vancomycin16	0.109	0.061
Rv2680_day32	0.488	-0.465
H37Rv_KO_MarP	-0.143	-0.302
hypoxia_3wks	-0.287	-0.774
hypoxia_6wks	-1.102	-0.666
glycerol	1.273	0.65
cholesterol	1.279	0.315
AJ	1.245	0.565
Bibs02	0.833	0.984
Bibs02c	1.082	0.679
BL6	-0.827	-0.16
BL6a	-0.39	0.014
BXD01	-0.134	-0.58
BXD010	-0.928	-0.687
BXD011	-1.362	-0.737
BXD03	-0.7	-0.566
BXD04	-0.575	0.035
BXD05	-0.239	-0.068
BXD06	-1.49	-0.939
BXD07	-1.003	-0.624
BXD08	-0.211	-0.277
BXD09	-0.973	-0.626
CAST	-0.279	0.794
CCcont	-0.416	-0.278
DS01	0.149	0.956
DS02	0.945	0.993
DS04	-0.065	0.45
DS0c	0.589	0.94
GP01	0.397	-0.24
GP02	0.226	0.643
GP0c	0.251	-0.111
NOD	0.0	-0.218
NZO	0.302	0.48
PWK	0.242	0.672
H37Rv_KO_CtpC	-1.404	-0.891
H37Rv_KO_CtpD	-0.408	-0.009
H37Rv_KO_Rv1272	0.234	0.232
H37Rv_KO_SugABC	-0.215	0.386
H37Rv_KO_MbtN	-0.816	0.239
Trans05	-0.608	0.28
macrophage_unactivated	0.079	-1.004
IL1	-0.552	-0.736
Rapamycin	-1.025	-0.62
Tcell	0.0	-0.978
GMCSF	0.716	-0.747
IFNab	-0.478	-0.429
IFNg	-1.245	-0.526
IFNg_GMCSF1	-0.584	-0.154
Rv1432_day32	0.516	0.352
Rv1565c_day32	-0.276	0.051
secA2_input	0.038	0.512
delta_Rv3594	-0.451	-0.207
delta_Rv3717	-0.736	-0.44
delta_Rv3811	-0.253	-0.007
delta_Rv0954	-0.469	0.172
PonA1	0.175	-0.128
EccD1_KO	0.599	0.697
EspI_KO	-0.739	0.211
PE35_KO	0.531	0.117
PPE68_KO	0.134	0.038
glycerol2	-0.27	-0.041
lignocerate	0.426	0.516
oleate	0.099	0.0
phosphatidylcholine	0.098	0.494
acetate	0.387	0.116
glucAc	0.877	0.086
Rv0950ko	1.043	0.555
Rv1096ko	0.899	-0.537
Rv3684ko	-0.413	-0.442
delta_otsA_trehalose	-0.122	-0.722