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 Rv1058/fadD14

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

	Rv3821/-	Rv1058/fadD14
Fe_supp_jason_reseq	0.204	0.845
low_pH_jason_reseq	0.361	2.618
NO_jason_reseq	1.334	-0.323
B6_jason_reseq	-1.143	-1.356
MHCII_jason_reseq	-0.348	-0.435
Isoniazid02	0.016	-0.194
Rifampicin4	0.563	-0.116
Ethambutol3	-0.344	0.148
Meropenem3	1.73	0.406
Vancomycin16	0.653	-0.544
Rv2680_day32	3.832	1.435
H37Rv_KO_MarP	-0.571	-0.653
hypoxia_3wks	-0.514	1.535
hypoxia_6wks	0.908	3.247
glycerol	-0.23	1.09
cholesterol	0.042	1.217
AJ	-0.447	1.03
Bibs02	0.514	0.262
Bibs02c	1.05	1.816
BL6	2.286	3.092
BL6a	2.042	2.987
BXD01	2.706	3.11
BXD010	2.187	2.481
BXD011	2.819	2.298
BXD03	1.409	1.948
BXD04	1.611	2.976
BXD05	2.385	2.087
BXD06	2.108	2.618
BXD07	2.655	2.642
BXD08	1.878	2.699
BXD09	3.365	2.228
CAST	-1.88	-0.222
CCcont	1.367	2.164
DS01	1.008	0.14
DS02	0.871	0.83
DS04	0.573	0.975
DS0c	1.116	0.963
GP01	0.892	2.962
GP02	0.016	2.733
GP0c	1.028	2.85
NOD	-0.067	0.997
NZO	0.256	0.675
PWK	-0.622	0.281
H37Rv_KO_CtpC	0.766	0.877
H37Rv_KO_CtpD	1.965	1.601
H37Rv_KO_Rv1272	2.215	2.677
H37Rv_KO_SugABC	1.93	3.098
H37Rv_KO_MbtN	2.409	1.92
Trans05	2.097	2.268
macrophage_unactivated	-0.925	-0.123
IL1	-2.684	-0.116
Rapamycin	-1.264	-0.371
Tcell	-2.434	0.394
GMCSF	-1.434	-1.714
IFNab	0.958	0.284
IFNg	-1.922	-2.913
IFNg_GMCSF1	-1.596	-2.599
Rv1432_day32	6.0	2.88
Rv1565c_day32	-1.827	1.579
secA2_input	-0.864	1.374
delta_Rv3594	0.739	1.779
delta_Rv3717	2.095	2.157
delta_Rv3811	1.447	1.756
delta_Rv0954	0.062	0.049
PonA1	-0.208	-0.851
EccD1_KO	-0.816	-0.046
EspI_KO	-0.374	-0.365
PE35_KO	-0.799	-0.98
PPE68_KO	-0.761	-0.41
glycerol2	2.208	1.219
lignocerate	0.826	1.649
oleate	2.711	-1.157
phosphatidylcholine	0.458	0.655
acetate	0.168	0.712
glucAc	0.249	0.682
Rv0950ko	0.467	-0.648
Rv1096ko	0.404	0.1
Rv3684ko	2.826	-0.262
delta_otsA_trehalose	-0.335	-0.009