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 Rv0365c/-:

update plot	correlation	link to info on gene
Rv3138/pflA	(cc=0.4881)	info on Rv3138/pflA
Rv3675/-	(cc=0.4735)	info on Rv3675/-
Rv0145/-	(cc=0.468)	info on Rv0145/-
Rv0971c/echA7	(cc=0.4593)	info on Rv0971c/echA7
Rv1981c/nrdF1	(cc=0.4332)	info on Rv1981c/nrdF1
Rv3008/-	(cc=0.4268)	info on Rv3008/-
Rv2390c/-	(cc=0.4256)	info on Rv2390c/-
Rv2891/-	(cc=0.4252)	info on Rv2891/-
Rv0874c/-	(cc=0.4176)	info on Rv0874c/-
Rv0897c/-	(cc=0.4155)	info on Rv0897c/-

Correlation of Rv0365c/- with Rv0971c/echA7

Normalized LFCs for Rv0365c/-:
(description and provenance of datasets)

	Rv0365c/-	Rv0971c/echA7
Fe_supp_jason_reseq	-0.158	-0.535
low_pH_jason_reseq	-0.793	-1.877
NO_jason_reseq	0.339	0.297
B6_jason_reseq	-0.393	-2.077
MHCII_jason_reseq	-0.159	-1.582
Isoniazid02	0.042	0.243
Rifampicin4	0.436	1.308
Ethambutol3	0.306	1.133
Meropenem3	-0.999	0.879
Vancomycin16	-0.358	0.117
Rv2680_day32	0.061	-0.022
H37Rv_KO_MarP	-0.095	0.378
hypoxia_3wks	-0.494	-0.694
hypoxia_6wks	-1.038	-0.867
glycerol	0.844	1.375
cholesterol	0.129	0.372
AJ	-0.254	0.299
Bibs02	0.234	0.29
Bibs02c	0.338	-0.186
BL6	0.314	1.067
BL6a	0.176	1.085
BXD01	0.361	0.483
BXD010	0.344	1.122
BXD011	2.593	0.698
BXD03	0.441	1.026
BXD04	-0.383	0.531
BXD05	0.523	1.583
BXD06	0.278	0.447
BXD07	0.418	1.171
BXD08	0.202	1.757
BXD09	-0.188	1.271
CAST	0.182	0.561
CCcont	0.283	1.056
DS01	0.175	0.34
DS02	1.093	0.934
DS04	0.114	2.478
DS0c	0.149	-0.591
GP01	0.842	0.185
GP02	0.915	1.92
GP0c	0.377	2.155
NOD	-0.288	-0.875
NZO	-0.045	-0.932
PWK	0.271	0.53
H37Rv_KO_CtpC	0.044	1.818
H37Rv_KO_CtpD	0.511	2.045
H37Rv_KO_Rv1272	0.097	1.674
H37Rv_KO_SugABC	0.742	2.493
H37Rv_KO_MbtN	0.381	0.871
Trans05	-0.143	1.229
macrophage_unactivated	0.297	0.641
IL1	0.338	0.982
Rapamycin	0.657	1.169
Tcell	0.212	-0.179
GMCSF	0.581	0.298
IFNab	0.608	0.707
IFNg	0.468	0.166
IFNg_GMCSF1	0.273	0.71
Rv1432_day32	-0.103	0.595
Rv1565c_day32	-0.377	-0.847
secA2_input	0.155	0.92
delta_Rv3594	-0.497	-0.902
delta_Rv3717	-0.653	-0.526
delta_Rv3811	-0.228	-0.815
delta_Rv0954	-0.411	-0.508
PonA1	0.22	-1.144
EccD1_KO	0.342	0.0
EspI_KO	-0.268	1.298
PE35_KO	-0.292	-0.044
PPE68_KO	-0.378	-1.638
glycerol2	-0.087	0.116
lignocerate	0.287	0.613
oleate	0.102	-0.688
phosphatidylcholine	0.146	0.332
acetate	0.012	0.712
glucAc	0.133	0.885
Rv0950ko	0.657	0.476
Rv1096ko	0.262	1.158
Rv3684ko	0.134	1.867
delta_otsA_trehalose	-0.284	0.768