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 Rv3438/-:

update plot	correlation	link to info on gene
Rv3850/-	(cc=0.5835)	info on Rv3850/-
Rv3855/ethR	(cc=0.5221)	info on Rv3855/ethR
Rv0821c/phoY2	(cc=0.5151)	info on Rv0821c/phoY2
Rv1633/uvrB	(cc=0.4806)	info on Rv1633/uvrB
Rv3045/adhC	(cc=0.4746)	info on Rv3045/adhC
Rv1502/-	(cc=0.4725)	info on Rv1502/-
Rv1100/-	(cc=0.4633)	info on Rv1100/-
Rv2335/cysE	(cc=0.4584)	info on Rv2335/cysE
Rv2299c/htpG	(cc=0.4437)	info on Rv2299c/htpG
Rv0892/-	(cc=0.4388)	info on Rv0892/-

Correlation of Rv3438/- with Rv2299c/htpG

Normalized LFCs for Rv3438/-:
(description and provenance of datasets)

	Rv3438/-	Rv2299c/htpG
Fe_supp_jason_reseq	1.678	0.15
low_pH_jason_reseq	1.215	0.018
NO_jason_reseq	-2.084	0.058
B6_jason_reseq	1.845	1.016
MHCII_jason_reseq	0.053	0.674
Isoniazid02	-0.914	-1.387
Rifampicin4	-0.236	-0.688
Ethambutol3	-0.471	-0.711
Meropenem3	-1.148	-1.282
Vancomycin16	0.324	-0.608
Rv2680_day32	0.593	0.322
H37Rv_KO_MarP	-0.409	0.285
hypoxia_3wks	-0.104	-1.113
hypoxia_6wks	-2.036	-1.274
glycerol	0.073	-0.079
cholesterol	1.403	0.302
AJ	-0.222	0.035
Bibs02	0.066	-0.24
Bibs02c	0.925	0.409
BL6	1.308	0.01
BL6a	1.706	0.449
BXD01	0.622	0.238
BXD010	2.112	0.489
BXD011	1.087	0.971
BXD03	1.843	0.1
BXD04	1.397	0.418
BXD05	1.159	1.074
BXD06	0.917	0.422
BXD07	1.269	0.551
BXD08	0.696	0.472
BXD09	1.069	0.559
CAST	1.87	0.494
CCcont	1.041	0.521
DS01	-0.476	0.072
DS02	-0.298	0.44
DS04	0.358	-0.155
DS0c	0.154	0.585
GP01	-1.608	-0.062
GP02	-1.105	-0.669
GP0c	-0.918	-0.288
NOD	0.737	1.118
NZO	-0.637	0.09
PWK	0.45	0.131
H37Rv_KO_CtpC	-0.061	-0.227
H37Rv_KO_CtpD	1.161	-0.122
H37Rv_KO_Rv1272	0.657	1.463
H37Rv_KO_SugABC	0.496	0.976
H37Rv_KO_MbtN	0.352	1.006
Trans05	0.822	0.526
macrophage_unactivated	-0.259	-0.221
IL1	0.733	0.389
Rapamycin	-0.252	-0.301
Tcell	0.0	0.479
GMCSF	1.827	-0.045
IFNab	0.233	-0.611
IFNg	0.935	-0.262
IFNg_GMCSF1	1.1	-0.512
Rv1432_day32	-1.182	0.52
Rv1565c_day32	0.482	0.73
secA2_input	0.598	-0.274
delta_Rv3594	-0.711	0.415
delta_Rv3717	-0.104	0.262
delta_Rv3811	-0.476	0.341
delta_Rv0954	0.129	0.11
PonA1	0.521	0.313
EccD1_KO	-1.22	-0.48
EspI_KO	-0.029	-0.086
PE35_KO	0.403	0.718
PPE68_KO	-0.698	0.397
glycerol2	-0.722	-0.462
lignocerate	-0.544	-0.179
oleate	-1.874	-0.295
phosphatidylcholine	-0.923	-0.422
acetate	-0.437	0.279
glucAc	0.501	0.0
Rv0950ko	0.479	0.118
Rv1096ko	0.35	-0.606
Rv3684ko	-0.187	0.282
delta_otsA_trehalose	0.85	-0.898