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 Rv1892/-:

update plot	correlation	link to info on gene
Rv1805c/-	(cc=0.5706)	info on Rv1805c/-
Rv0093c/-	(cc=0.5354)	info on Rv0093c/-
Rv3487c/lipF	(cc=0.5017)	info on Rv3487c/lipF
Rv2281/pitB	(cc=0.4625)	info on Rv2281/pitB
Rv2758c/vapB21	(cc=0.4559)	info on Rv2758c/vapB21
Rv3528c/-	(cc=0.4516)	info on Rv3528c/-
Rv1847/-	(cc=0.4494)	info on Rv1847/-
Rv2151c/ftsQ	(cc=0.4486)	info on Rv2151c/ftsQ
Rv1499/-	(cc=0.4438)	info on Rv1499/-
Rv3840/-	(cc=0.4407)	info on Rv3840/-

Correlation of Rv1892/- with Rv1805c/-

Normalized LFCs for Rv1892/-:
(description and provenance of datasets)

	Rv1892/-	Rv1805c/-
Fe_supp_jason_reseq	0.065	0.218
low_pH_jason_reseq	-0.997	-1.673
NO_jason_reseq	0.228	-0.399
B6_jason_reseq	-0.277	-0.082
MHCII_jason_reseq	-0.127	-0.977
Isoniazid02	0.194	-0.496
Rifampicin4	-0.011	-1.795
Ethambutol3	0.4	-0.665
Meropenem3	0.452	-1.109
Vancomycin16	0.127	-0.905
Rv2680_day32	0.304	0.024
H37Rv_KO_MarP	0.212	-0.291
hypoxia_3wks	0.299	-0.833
hypoxia_6wks	0.62	1.025
glycerol	0.24	-1.128
cholesterol	0.302	3.081
AJ	0.768	0.239
Bibs02	0.069	-0.529
Bibs02c	-0.323	-0.414
BL6	0.32	-0.194
BL6a	0.034	-0.392
BXD01	0.375	0.944
BXD010	0.673	-0.37
BXD011	0.437	0.461
BXD03	0.139	-0.456
BXD04	0.513	-0.546
BXD05	0.602	1.023
BXD06	0.538	0.76
BXD07	0.798	0.699
BXD08	0.636	1.121
BXD09	0.796	0.645
CAST	0.237	0.16
CCcont	0.368	1.852
DS01	0.522	0.392
DS02	0.337	-0.337
DS04	0.587	0.2
DS0c	0.218	1.279
GP01	-0.057	-1.099
GP02	1.255	-0.926
GP0c	0.015	-1.447
NOD	0.14	-0.168
NZO	0.501	0.392
PWK	1.816	1.236
H37Rv_KO_CtpC	0.408	-1.119
H37Rv_KO_CtpD	0.09	0.358
H37Rv_KO_Rv1272	0.816	0.546
H37Rv_KO_SugABC	0.092	-0.831
H37Rv_KO_MbtN	1.48	2.897
Trans05	0.447	-0.73
macrophage_unactivated	1.556	2.364
IL1	0.691	0.433
Rapamycin	0.307	0.092
Tcell	0.531	0.29
GMCSF	0.898	-1.84
IFNab	0.674	-0.49
IFNg	1.152	0.877
IFNg_GMCSF1	-0.198	-0.619
Rv1432_day32	-0.047	0.0
Rv1565c_day32	0.1	-1.229
secA2_input	0.85	0.238
delta_Rv3594	0.314	-0.779
delta_Rv3717	0.418	0.473
delta_Rv3811	0.433	0.513
delta_Rv0954	0.611	-1.45
PonA1	-0.312	-2.179
EccD1_KO	-0.595	-1.085
EspI_KO	-0.59	-0.496
PE35_KO	-0.75	-0.729
PPE68_KO	-0.461	-1.328
glycerol2	0.768	1.872
lignocerate	1.102	2.403
oleate	0.034	0.241
phosphatidylcholine	0.707	1.499
acetate	1.167	2.404
glucAc	1.005	2.113
Rv0950ko	0.247	0.329
Rv1096ko	-0.187	-1.056
Rv3684ko	0.147	-1.778
delta_otsA_trehalose	-1.231	-0.311