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 Rv1366/-:

update plot	correlation	link to info on gene
Rv3749c/-	(cc=0.6056)	info on Rv3749c/-
Rv2078/-	(cc=0.5622)	info on Rv2078/-
Rv1913/-	(cc=0.5434)	info on Rv1913/-
Rv1013/pks16	(cc=0.5409)	info on Rv1013/pks16
Rv2287/yjcE	(cc=0.5232)	info on Rv2287/yjcE
Rv1751/-	(cc=0.5193)	info on Rv1751/-
Rv3697c/vapC48	(cc=0.5103)	info on Rv3697c/vapC48
Rv3819/-	(cc=0.4989)	info on Rv3819/-
Rv0226c/-	(cc=0.4983)	info on Rv0226c/-
Rv0235c/-	(cc=0.4943)	info on Rv0235c/-

Correlation of Rv1366/- with Rv0226c/-

Normalized LFCs for Rv1366/-:
(description and provenance of datasets)

	Rv1366/-	Rv0226c/-
Fe_supp_jason_reseq	-0.884	0.0
low_pH_jason_reseq	-0.172	-1.103
NO_jason_reseq	-0.294	-0.541
B6_jason_reseq	-0.871	-0.111
MHCII_jason_reseq	-0.267	0.296
Isoniazid02	0.148	0.383
Rifampicin4	-0.376	0.712
Ethambutol3	0.269	0.085
Meropenem3	0.237	0.581
Vancomycin16	0.172	0.536
Rv2680_day32	-0.969	-0.789
H37Rv_KO_MarP	0.518	-0.299
hypoxia_3wks	-0.235	-0.885
hypoxia_6wks	-0.048	-0.637
glycerol	-0.78	1.379
cholesterol	-0.44	0.614
AJ	0.134	-0.405
Bibs02	-0.823	-0.234
Bibs02c	0.656	0.587
BL6	0.376	0.097
BL6a	0.397	0.555
BXD01	0.834	-0.358
BXD010	1.115	0.236
BXD011	0.35	-0.418
BXD03	-0.278	-0.686
BXD04	0.315	0.384
BXD05	0.231	0.0
BXD06	0.323	-0.438
BXD07	0.476	-0.454
BXD08	0.506	-0.963
BXD09	-0.012	-0.713
CAST	-0.142	-0.402
CCcont	0.646	0.372
DS01	0.301	-0.098
DS02	-0.254	0.61
DS04	0.263	0.973
DS0c	0.525	0.8
GP01	1.227	0.654
GP02	1.296	0.727
GP0c	0.54	1.091
NOD	0.148	-0.737
NZO	0.839	0.79
PWK	0.406	-0.081
H37Rv_KO_CtpC	0.467	0.599
H37Rv_KO_CtpD	-0.907	-0.348
H37Rv_KO_Rv1272	0.341	-0.181
H37Rv_KO_SugABC	0.902	0.446
H37Rv_KO_MbtN	0.392	-0.832
Trans05	0.557	-0.109
macrophage_unactivated	0.107	0.0
IL1	-0.739	-0.199
Rapamycin	-0.681	-1.409
Tcell	0.694	-0.691
GMCSF	-1.117	-0.982
IFNab	-0.593	-1.672
IFNg	-1.384	-1.743
IFNg_GMCSF1	-1.628	-1.738
Rv1432_day32	-0.55	0.0
Rv1565c_day32	0.175	-0.52
secA2_input	-0.188	-0.611
delta_Rv3594	-0.249	-0.961
delta_Rv3717	0.371	-0.228
delta_Rv3811	-0.665	0.238
delta_Rv0954	0.813	-0.729
PonA1	0.726	-0.154
EccD1_KO	-0.276	0.306
EspI_KO	0.262	-0.918
PE35_KO	0.379	1.105
PPE68_KO	0.534	0.841
glycerol2	1.188	0.618
lignocerate	1.47	1.453
oleate	0.387	-0.493
phosphatidylcholine	1.27	0.913
acetate	1.549	1.084
glucAc	1.226	1.186
Rv0950ko	0.856	-0.6
Rv1096ko	0.32	0.139
Rv3684ko	0.534	-0.154
delta_otsA_trehalose	1.077	0.0