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 Rv2504c/scoA:

update plot	correlation	link to info on gene
Rv0690c/-	(cc=0.5398)	info on Rv0690c/-
Rv3055/-	(cc=0.505)	info on Rv3055/-
Rv1164/narI	(cc=0.4741)	info on Rv1164/narI
Rv1147/-	(cc=0.4527)	info on Rv1147/-
Rv2652c/-	(cc=0.4505)	info on Rv2652c/-
Rv2359/zur	(cc=0.4502)	info on Rv2359/zur
Rv1288/-	(cc=0.4457)	info on Rv1288/-
Rv1674c/-	(cc=0.4385)	info on Rv1674c/-
Rv1482c/-	(cc=0.4327)	info on Rv1482c/-
Rv3074/-	(cc=0.4309)	info on Rv3074/-

Correlation of Rv2504c/scoA with Rv1674c/-

Normalized LFCs for Rv2504c/scoA:
(description and provenance of datasets)

	Rv2504c/scoA	Rv1674c/-
Fe_supp_jason_reseq	-0.328	0.107
low_pH_jason_reseq	-0.776	-1.745
NO_jason_reseq	0.131	-0.268
B6_jason_reseq	-0.721	0.765
MHCII_jason_reseq	-0.008	0.621
Isoniazid02	0.0	-0.127
Rifampicin4	0.0	-0.032
Ethambutol3	2.285	3.103
Meropenem3	1.282	-0.426
Vancomycin16	0.446	-0.199
Rv2680_day32	0.02	-0.066
H37Rv_KO_MarP	-0.409	1.245
hypoxia_3wks	0.638	-0.554
hypoxia_6wks	0.906	-0.727
glycerol	-1.024	0.076
cholesterol	-0.541	-0.045
AJ	0.133	0.798
Bibs02	-0.823	0.37
Bibs02c	-0.259	0.271
BL6	0.412	0.253
BL6a	-0.329	-0.535
BXD01	0.328	-0.64
BXD010	-0.303	-0.744
BXD011	0.524	-0.45
BXD03	0.227	-2.001
BXD04	-0.065	-0.286
BXD05	-0.489	-0.461
BXD06	0.191	-0.849
BXD07	-0.01	-1.419
BXD08	0.173	-0.151
BXD09	-0.454	-0.673
CAST	-0.267	-0.184
CCcont	0.306	-0.289
DS01	-0.352	-0.616
DS02	-0.113	0.466
DS04	0.901	0.802
DS0c	-0.701	0.251
GP01	-0.737	-0.879
GP02	0.781	1.05
GP0c	-0.099	-0.17
NOD	-0.553	-0.996
NZO	0.348	0.104
PWK	-0.325	-0.325
H37Rv_KO_CtpC	-0.06	-1.699
H37Rv_KO_CtpD	-1.044	1.108
H37Rv_KO_Rv1272	0.156	0.454
H37Rv_KO_SugABC	-0.682	-1.435
H37Rv_KO_MbtN	0.661	-1.015
Trans05	0.396	0.106
macrophage_unactivated	-0.152	-1.36
IL1	-0.142	-1.026
Rapamycin	0.641	-0.362
Tcell	-0.218	0.156
GMCSF	1.053	1.885
IFNab	0.0	-1.24
IFNg	0.788	-0.711
IFNg_GMCSF1	0.201	-1.496
Rv1432_day32	0.422	0.405
Rv1565c_day32	2.104	0.911
secA2_input	0.985	0.069
delta_Rv3594	-0.772	0.113
delta_Rv3717	-0.204	-0.058
delta_Rv3811	-1.52	0.214
delta_Rv0954	0.2	0.306
PonA1	0.19	-0.881
EccD1_KO	0.997	2.253
EspI_KO	1.135	0.582
PE35_KO	0.977	2.727
PPE68_KO	1.741	2.675
glycerol2	0.216	0.303
lignocerate	0.934	0.918
oleate	-0.102	0.306
phosphatidylcholine	0.577	0.919
acetate	0.239	0.69
glucAc	0.522	0.716
Rv0950ko	-0.546	0.537
Rv1096ko	1.071	1.695
Rv3684ko	-0.324	0.917
delta_otsA_trehalose	-0.476	-1.084