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 Rv3821/-:

update plot	correlation	link to info on gene
Rv3823c/mmpL8	(cc=0.8017)	info on Rv3823c/mmpL8
Rv0644c/mmaA2	(cc=0.6431)	info on Rv0644c/mmaA2
Rv0473/-	(cc=0.614)	info on Rv0473/-
Rv1058/fadD14	(cc=0.6105)	info on Rv1058/fadD14
Rv0502/-	(cc=0.6044)	info on Rv0502/-
Rv1640c/lysX	(cc=0.596)	info on Rv1640c/lysX
Rv1008/tatD	(cc=0.5932)	info on Rv1008/tatD
Rv1543/-	(cc=0.593)	info on Rv1543/-
Rv3146/nuoB	(cc=0.5849)	info on Rv3146/nuoB
Rv0181c/-	(cc=0.584)	info on Rv0181c/-

Correlation of Rv3821/- with Rv0181c/-

Normalized LFCs for Rv3821/-:
(description and provenance of datasets)

	Rv3821/-	Rv0181c/-
Fe_supp_jason_reseq	0.204	-0.17
low_pH_jason_reseq	0.361	0.405
NO_jason_reseq	1.334	1.638
B6_jason_reseq	-1.143	0.841
MHCII_jason_reseq	-0.348	-1.016
Isoniazid02	0.016	-1.072
Rifampicin4	0.563	0.0
Ethambutol3	-0.344	0.473
Meropenem3	1.73	1.101
Vancomycin16	0.653	0.17
Rv2680_day32	3.832	1.66
H37Rv_KO_MarP	-0.571	0.731
hypoxia_3wks	-0.514	-0.658
hypoxia_6wks	0.908	0.543
glycerol	-0.23	-1.575
cholesterol	0.042	0.19
AJ	-0.447	-0.266
Bibs02	0.514	-0.193
Bibs02c	1.05	0.385
BL6	2.286	2.071
BL6a	2.042	1.419
BXD01	2.706	2.73
BXD010	2.187	1.723
BXD011	2.819	2.794
BXD03	1.409	1.363
BXD04	1.611	2.335
BXD05	2.385	1.201
BXD06	2.108	2.002
BXD07	2.655	2.818
BXD08	1.878	2.041
BXD09	3.365	2.249
CAST	-1.88	0.053
CCcont	1.367	0.824
DS01	1.008	-0.417
DS02	0.871	-0.268
DS04	0.573	0.2
DS0c	1.116	-0.324
GP01	0.892	0.627
GP02	0.016	1.496
GP0c	1.028	1.134
NOD	-0.067	-0.356
NZO	0.256	0.38
PWK	-0.622	0.544
H37Rv_KO_CtpC	0.766	0.038
H37Rv_KO_CtpD	1.965	0.664
H37Rv_KO_Rv1272	2.215	1.081
H37Rv_KO_SugABC	1.93	0.281
H37Rv_KO_MbtN	2.409	0.135
Trans05	2.097	0.282
macrophage_unactivated	-0.925	-0.407
IL1	-2.684	1.05
Rapamycin	-1.264	0.5
Tcell	-2.434	-0.375
GMCSF	-1.434	-0.795
IFNab	0.958	-0.369
IFNg	-1.922	0.176
IFNg_GMCSF1	-1.596	-0.258
Rv1432_day32	6.0	2.235
Rv1565c_day32	-1.827	-0.643
secA2_input	-0.864	0.297
delta_Rv3594	0.739	1.094
delta_Rv3717	2.095	1.06
delta_Rv3811	1.447	1.124
delta_Rv0954	0.062	0.61
PonA1	-0.208	0.314
EccD1_KO	-0.816	-0.122
EspI_KO	-0.374	-0.077
PE35_KO	-0.799	-0.3
PPE68_KO	-0.761	-0.118
glycerol2	2.208	0.258
lignocerate	0.826	-0.102
oleate	2.711	0.371
phosphatidylcholine	0.458	-0.31
acetate	0.168	0.306
glucAc	0.249	0.425
Rv0950ko	0.467	-0.305
Rv1096ko	0.404	-0.305
Rv3684ko	2.826	0.157
delta_otsA_trehalose	-0.335	2.031