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 Rv1981c/nrdF1

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

	Rv0365c/-	Rv1981c/nrdF1
Fe_supp_jason_reseq	-0.158	0.204
low_pH_jason_reseq	-0.793	-1.022
NO_jason_reseq	0.339	-0.417
B6_jason_reseq	-0.393	0.31
MHCII_jason_reseq	-0.159	0.087
Isoniazid02	0.042	-0.639
Rifampicin4	0.436	0.143
Ethambutol3	0.306	0.064
Meropenem3	-0.999	-0.466
Vancomycin16	-0.358	-0.456
Rv2680_day32	0.061	0.742
H37Rv_KO_MarP	-0.095	-0.333
hypoxia_3wks	-0.494	-0.646
hypoxia_6wks	-1.038	-1.297
glycerol	0.844	0.089
cholesterol	0.129	-0.384
AJ	-0.254	-0.012
Bibs02	0.234	0.468
Bibs02c	0.338	0.473
BL6	0.314	0.25
BL6a	0.176	0.443
BXD01	0.361	0.283
BXD010	0.344	0.295
BXD011	2.593	0.653
BXD03	0.441	0.455
BXD04	-0.383	0.492
BXD05	0.523	0.397
BXD06	0.278	0.536
BXD07	0.418	0.277
BXD08	0.202	-0.029
BXD09	-0.188	0.417
CAST	0.182	-0.012
CCcont	0.283	0.321
DS01	0.175	0.301
DS02	1.093	-0.028
DS04	0.114	0.025
DS0c	0.149	0.542
GP01	0.842	0.421
GP02	0.915	0.603
GP0c	0.377	0.365
NOD	-0.288	0.667
NZO	-0.045	-0.39
PWK	0.271	0.036
H37Rv_KO_CtpC	0.044	0.101
H37Rv_KO_CtpD	0.511	0.44
H37Rv_KO_Rv1272	0.097	0.588
H37Rv_KO_SugABC	0.742	1.0
H37Rv_KO_MbtN	0.381	0.046
Trans05	-0.143	0.555
macrophage_unactivated	0.297	0.174
IL1	0.338	0.294
Rapamycin	0.657	-0.157
Tcell	0.212	0.111
GMCSF	0.581	0.269
IFNab	0.608	0.166
IFNg	0.468	0.059
IFNg_GMCSF1	0.273	0.273
Rv1432_day32	-0.103	-0.155
Rv1565c_day32	-0.377	-0.878
secA2_input	0.155	-0.427
delta_Rv3594	-0.497	-0.049
delta_Rv3717	-0.653	-0.31
delta_Rv3811	-0.228	0.012
delta_Rv0954	-0.411	0.231
PonA1	0.22	0.359
EccD1_KO	0.342	0.066
EspI_KO	-0.268	0.103
PE35_KO	-0.292	-0.108
PPE68_KO	-0.378	0.032
glycerol2	-0.087	0.965
lignocerate	0.287	0.958
oleate	0.102	1.048
phosphatidylcholine	0.146	0.957
acetate	0.012	0.258
glucAc	0.133	0.183
Rv0950ko	0.657	0.663
Rv1096ko	0.262	0.118
Rv3684ko	0.134	-0.331
delta_otsA_trehalose	-0.284	0.71