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 Rv3138/pflA

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

	Rv0365c/-	Rv3138/pflA
Fe_supp_jason_reseq	-0.158	-0.298
low_pH_jason_reseq	-0.793	0.089
NO_jason_reseq	0.339	-0.06
B6_jason_reseq	-0.393	-0.658
MHCII_jason_reseq	-0.159	-0.094
Isoniazid02	0.042	0.153
Rifampicin4	0.436	-0.173
Ethambutol3	0.306	0.358
Meropenem3	-0.999	-0.818
Vancomycin16	-0.358	-0.485
Rv2680_day32	0.061	-0.696
H37Rv_KO_MarP	-0.095	0.346
hypoxia_3wks	-0.494	-0.032
hypoxia_6wks	-1.038	-0.081
glycerol	0.844	-0.575
cholesterol	0.129	0.068
AJ	-0.254	0.425
Bibs02	0.234	0.527
Bibs02c	0.338	0.582
BL6	0.314	0.17
BL6a	0.176	0.732
BXD01	0.361	0.703
BXD010	0.344	0.479
BXD011	2.593	2.15
BXD03	0.441	0.39
BXD04	-0.383	0.702
BXD05	0.523	0.833
BXD06	0.278	0.587
BXD07	0.418	0.831
BXD08	0.202	0.054
BXD09	-0.188	0.746
CAST	0.182	-0.132
CCcont	0.283	0.454
DS01	0.175	0.0
DS02	1.093	0.269
DS04	0.114	-0.571
DS0c	0.149	0.36
GP01	0.842	0.456
GP02	0.915	0.077
GP0c	0.377	-0.103
NOD	-0.288	-0.212
NZO	-0.045	0.678
PWK	0.271	0.772
H37Rv_KO_CtpC	0.044	-0.241
H37Rv_KO_CtpD	0.511	-0.198
H37Rv_KO_Rv1272	0.097	0.362
H37Rv_KO_SugABC	0.742	-0.155
H37Rv_KO_MbtN	0.381	-0.113
Trans05	-0.143	0.469
macrophage_unactivated	0.297	1.275
IL1	0.338	0.736
Rapamycin	0.657	0.292
Tcell	0.212	0.489
GMCSF	0.581	0.57
IFNab	0.608	0.133
IFNg	0.468	0.454
IFNg_GMCSF1	0.273	0.877
Rv1432_day32	-0.103	0.159
Rv1565c_day32	-0.377	0.224
secA2_input	0.155	-0.366
delta_Rv3594	-0.497	-0.878
delta_Rv3717	-0.653	-0.943
delta_Rv3811	-0.228	-0.665
delta_Rv0954	-0.411	0.12
PonA1	0.22	-0.459
EccD1_KO	0.342	0.98
EspI_KO	-0.268	0.268
PE35_KO	-0.292	0.274
PPE68_KO	-0.378	0.358
glycerol2	-0.087	0.156
lignocerate	0.287	0.379
oleate	0.102	0.021
phosphatidylcholine	0.146	0.328
acetate	0.012	-0.286
glucAc	0.133	-0.017
Rv0950ko	0.657	0.28
Rv1096ko	0.262	0.13
Rv3684ko	0.134	0.616
delta_otsA_trehalose	-0.284	0.181