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 Rv0897c/-

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

	Rv0365c/-	Rv0897c/-
Fe_supp_jason_reseq	-0.158	-0.717
low_pH_jason_reseq	-0.793	-0.95
NO_jason_reseq	0.339	-0.446
B6_jason_reseq	-0.393	-1.545
MHCII_jason_reseq	-0.159	-0.658
Isoniazid02	0.042	-0.391
Rifampicin4	0.436	0.512
Ethambutol3	0.306	-0.204
Meropenem3	-0.999	-0.322
Vancomycin16	-0.358	0.26
Rv2680_day32	0.061	0.517
H37Rv_KO_MarP	-0.095	0.127
hypoxia_3wks	-0.494	-0.821
hypoxia_6wks	-1.038	-0.43
glycerol	0.844	0.432
cholesterol	0.129	0.147
AJ	-0.254	-0.141
Bibs02	0.234	0.494
Bibs02c	0.338	0.406
BL6	0.314	0.616
BL6a	0.176	0.069
BXD01	0.361	-0.544
BXD010	0.344	-0.197
BXD011	2.593	0.116
BXD03	0.441	0.123
BXD04	-0.383	0.057
BXD05	0.523	0.261
BXD06	0.278	0.046
BXD07	0.418	0.048
BXD08	0.202	-0.098
BXD09	-0.188	-0.235
CAST	0.182	-0.055
CCcont	0.283	-0.425
DS01	0.175	-0.267
DS02	1.093	-0.052
DS04	0.114	1.583
DS0c	0.149	0.464
GP01	0.842	0.285
GP02	0.915	2.28
GP0c	0.377	-0.047
NOD	-0.288	0.0
NZO	-0.045	0.246
PWK	0.271	0.719
H37Rv_KO_CtpC	0.044	-0.141
H37Rv_KO_CtpD	0.511	0.732
H37Rv_KO_Rv1272	0.097	0.033
H37Rv_KO_SugABC	0.742	0.321
H37Rv_KO_MbtN	0.381	0.024
Trans05	-0.143	-1.111
macrophage_unactivated	0.297	-0.713
IL1	0.338	0.101
Rapamycin	0.657	0.141
Tcell	0.212	-0.782
GMCSF	0.581	0.517
IFNab	0.608	-0.562
IFNg	0.468	-0.224
IFNg_GMCSF1	0.273	0.386
Rv1432_day32	-0.103	0.048
Rv1565c_day32	-0.377	-0.75
secA2_input	0.155	1.035
delta_Rv3594	-0.497	-0.904
delta_Rv3717	-0.653	-1.275
delta_Rv3811	-0.228	-0.418
delta_Rv0954	-0.411	-0.84
PonA1	0.22	0.155
EccD1_KO	0.342	0.329
EspI_KO	-0.268	-0.359
PE35_KO	-0.292	-0.05
PPE68_KO	-0.378	0.32
glycerol2	-0.087	-0.716
lignocerate	0.287	0.09
oleate	0.102	-1.686
phosphatidylcholine	0.146	-0.389
acetate	0.012	0.201
glucAc	0.133	0.076
Rv0950ko	0.657	0.709
Rv1096ko	0.262	1.068
Rv3684ko	0.134	0.291
delta_otsA_trehalose	-0.284	0.095