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 Rv2738c/-:

update plot	correlation	link to info on gene
Rv0399c/lpqK	(cc=0.6205)	info on Rv0399c/lpqK
Rv3919c/gid	(cc=0.5884)	info on Rv3919c/gid
Rv2650c/-	(cc=0.5845)	info on Rv2650c/-
Rv1678/-	(cc=0.5484)	info on Rv1678/-
Rv0160c/PE4	(cc=0.5353)	info on Rv0160c/PE4
Rv3572/-	(cc=0.5225)	info on Rv3572/-
Rv0940c/-	(cc=0.5083)	info on Rv0940c/-
Rv3191c/-	(cc=0.4943)	info on Rv3191c/-
Rv0968/-	(cc=0.4931)	info on Rv0968/-
Rv3291c/lrpA	(cc=0.4894)	info on Rv3291c/lrpA

Correlation of Rv2738c/- with Rv1678/-

Normalized LFCs for Rv2738c/-:
(description and provenance of datasets)

	Rv2738c/-	Rv1678/-
Fe_supp_jason_reseq	-0.415	-0.603
low_pH_jason_reseq	1.104	2.096
NO_jason_reseq	-1.013	-0.105
B6_jason_reseq	-1.973	-2.073
MHCII_jason_reseq	-1.598	0.526
Isoniazid02	-4.829	-2.721
Rifampicin4	0.904	1.032
Ethambutol3	-3.412	-2.157
Meropenem3	-3.54	-1.042
Vancomycin16	-1.417	-0.801
Rv2680_day32	-1.982	0.068
H37Rv_KO_MarP	0.579	-0.673
hypoxia_3wks	-1.388	-0.961
hypoxia_6wks	-0.704	0.497
glycerol	1.011	1.333
cholesterol	0.041	0.264
AJ	-0.632	-0.585
Bibs02	0.366	1.974
Bibs02c	0.826	-0.399
BL6	-1.448	0.859
BL6a	0.647	1.69
BXD01	-0.064	0.291
BXD010	0.445	0.912
BXD011	-0.063	1.015
BXD03	0.92	2.0
BXD04	0.058	1.013
BXD05	0.955	1.302
BXD06	0.235	0.543
BXD07	0.432	1.34
BXD08	0.851	0.878
BXD09	0.013	1.303
CAST	-1.875	0.514
CCcont	-1.564	1.385
DS01	-0.89	1.465
DS02	0.274	0.654
DS04	1.116	1.546
DS0c	-1.353	-0.11
GP01	-0.109	-0.077
GP02	-0.894	-1.089
GP0c	0.107	0.573
NOD	0.571	0.264
NZO	-0.139	0.279
PWK	-0.997	-0.205
H37Rv_KO_CtpC	1.283	1.028
H37Rv_KO_CtpD	0.387	2.483
H37Rv_KO_Rv1272	0.226	0.501
H37Rv_KO_SugABC	-1.147	-1.066
H37Rv_KO_MbtN	0.393	2.197
Trans05	1.008	2.198
macrophage_unactivated	-0.657	0.571
IL1	-0.267	1.035
Rapamycin	0.298	0.436
Tcell	0.456	-0.104
GMCSF	-1.048	0.451
IFNab	-0.103	1.206
IFNg	0.406	-0.235
IFNg_GMCSF1	-0.129	-0.496
Rv1432_day32	0.096	0.0
Rv1565c_day32	-0.76	2.098
secA2_input	0.387	-0.042
delta_Rv3594	0.277	0.858
delta_Rv3717	0.147	1.452
delta_Rv3811	0.891	1.17
delta_Rv0954	0.0	1.47
PonA1	0.19	1.133
EccD1_KO	0.576	0.164
EspI_KO	0.063	0.787
PE35_KO	-1.138	0.618
PPE68_KO	-0.243	1.014
glycerol2	-0.958	0.321
lignocerate	-0.401	2.26
oleate	-1.46	-1.983
phosphatidylcholine	-0.287	1.401
acetate	0.048	2.522
glucAc	-0.127	2.538
Rv0950ko	0.917	-0.935
Rv1096ko	-0.051	-0.766
Rv3684ko	0.688	0.223
delta_otsA_trehalose	0.382	-1.065