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 Rv3897c/-

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

	Rv3590c/PE_PGRS58	Rv3897c/-
Fe_supp_jason_reseq	-0.863	0.082
low_pH_jason_reseq	0.0	-0.552
NO_jason_reseq	0.0	-1.257
B6_jason_reseq	0.714	0.291
MHCII_jason_reseq	0.27	0.249
Isoniazid02	0.79	0.07
Rifampicin4	1.47	0.785
Ethambutol3	0.728	0.502
Meropenem3	0.096	0.806
Vancomycin16	0.109	0.345
Rv2680_day32	0.488	2.136
H37Rv_KO_MarP	-0.143	0.313
hypoxia_3wks	-0.287	-0.754
hypoxia_6wks	-1.102	-0.307
glycerol	1.273	0.96
cholesterol	1.279	0.497
AJ	1.245	1.434
Bibs02	0.833	1.359
Bibs02c	1.082	1.761
BL6	-0.827	0.482
BL6a	-0.39	0.558
BXD01	-0.134	0.25
BXD010	-0.928	0.253
BXD011	-1.362	-0.312
BXD03	-0.7	0.03
BXD04	-0.575	-0.137
BXD05	-0.239	-0.849
BXD06	-1.49	0.133
BXD07	-1.003	-0.3
BXD08	-0.211	-0.62
BXD09	-0.973	-0.469
CAST	-0.279	0.339
CCcont	-0.416	0.259
DS01	0.149	0.253
DS02	0.945	1.174
DS04	-0.065	0.59
DS0c	0.589	-0.277
GP01	0.397	0.834
GP02	0.226	1.263
GP0c	0.251	0.48
NOD	0.0	0.286
NZO	0.302	0.799
PWK	0.242	0.519
H37Rv_KO_CtpC	-1.404	-0.049
H37Rv_KO_CtpD	-0.408	-0.262
H37Rv_KO_Rv1272	0.234	0.347
H37Rv_KO_SugABC	-0.215	0.126
H37Rv_KO_MbtN	-0.816	0.111
Trans05	-0.608	1.091
macrophage_unactivated	0.079	-1.174
IL1	-0.552	-1.634
Rapamycin	-1.025	-0.273
Tcell	0.0	-1.14
GMCSF	0.716	0.024
IFNab	-0.478	-0.16
IFNg	-1.245	-1.179
IFNg_GMCSF1	-0.584	-0.899
Rv1432_day32	0.516	0.375
Rv1565c_day32	-0.276	-0.199
secA2_input	0.038	1.019
delta_Rv3594	-0.451	0.228
delta_Rv3717	-0.736	0.263
delta_Rv3811	-0.253	0.503
delta_Rv0954	-0.469	-0.456
PonA1	0.175	0.287
EccD1_KO	0.599	1.128
EspI_KO	-0.739	-0.077
PE35_KO	0.531	0.172
PPE68_KO	0.134	0.208
glycerol2	-0.27	0.856
lignocerate	0.426	1.299
oleate	0.099	0.133
phosphatidylcholine	0.098	0.668
acetate	0.387	1.219
glucAc	0.877	1.534
Rv0950ko	1.043	1.785
Rv1096ko	0.899	1.984
Rv3684ko	-0.413	1.402
delta_otsA_trehalose	-0.122	-0.623