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 Rv3394c/-:

update plot	correlation	link to info on gene
Rv3511/PE_PGRS55	(cc=0.5008)	info on Rv3511/PE_PGRS55
Rv3514/PE_PGRS57	(cc=0.4562)	info on Rv3514/PE_PGRS57
Rv3508/PE_PGRS54	(cc=0.4517)	info on Rv3508/PE_PGRS54
Rv2853/PE_PGRS48	(cc=0.4274)	info on Rv2853/PE_PGRS48
Rv2431c/PE25	(cc=0.405)	info on Rv2431c/PE25
Rv0834c/PE_PGRS14	(cc=0.4013)	info on Rv0834c/PE_PGRS14
Rv0142/-	(cc=0.3995)	info on Rv0142/-
Rv3299c/atsB	(cc=0.399)	info on Rv3299c/atsB
Rv0858c/dapC	(cc=0.3974)	info on Rv0858c/dapC
Rv3470c/ilvB2	(cc=0.3907)	info on Rv3470c/ilvB2

Correlation of Rv3394c/- with Rv3508/PE_PGRS54

Normalized LFCs for Rv3394c/-:
(description and provenance of datasets)

	Rv3394c/-	Rv3508/PE_PGRS54
Fe_supp_jason_reseq	-0.829	-0.532
low_pH_jason_reseq	1.228	0.0
NO_jason_reseq	0.591	0.0
B6_jason_reseq	-1.269	-0.103
MHCII_jason_reseq	-0.58	0.591
Isoniazid02	-0.339	-2.021
Rifampicin4	0.72	0.772
Ethambutol3	-0.197	-1.28
Meropenem3	0.207	-1.748
Vancomycin16	0.0	-0.727
Rv2680_day32	-0.422	0.046
H37Rv_KO_MarP	0.289	-0.103
hypoxia_3wks	0.439	-0.215
hypoxia_6wks	-0.048	-0.616
glycerol	2.058	1.028
cholesterol	1.696	0.648
AJ	1.627	0.726
Bibs02	0.0	0.73
Bibs02c	0.756	0.415
BL6	0.16	-0.269
BL6a	0.443	0.27
BXD01	0.029	0.259
BXD010	0.4	-0.276
BXD011	0.137	-0.236
BXD03	0.399	-0.033
BXD04	0.486	0.03
BXD05	0.373	0.397
BXD06	0.417	0.182
BXD07	0.232	0.408
BXD08	1.2	0.947
BXD09	0.39	0.162
CAST	0.385	0.364
CCcont	0.677	-0.193
DS01	0.777	-0.058
DS02	0.364	0.104
DS04	1.147	0.607
DS0c	-0.823	-0.28
GP01	1.305	1.149
GP02	1.89	1.255
GP0c	0.769	1.092
NOD	-0.158	-0.169
NZO	0.446	0.272
PWK	0.0	0.783
H37Rv_KO_CtpC	0.587	-0.209
H37Rv_KO_CtpD	0.351	0.441
H37Rv_KO_Rv1272	1.115	0.934
H37Rv_KO_SugABC	0.659	-0.243
H37Rv_KO_MbtN	-0.024	0.184
Trans05	1.567	0.361
macrophage_unactivated	-0.114	-0.287
IL1	0.727	-0.365
Rapamycin	-0.055	-1.126
Tcell	-0.554	-1.072
GMCSF	0.317	-0.158
IFNab	-0.109	-1.345
IFNg	0.406	-1.082
IFNg_GMCSF1	1.09	-0.698
Rv1432_day32	1.112	0.855
Rv1565c_day32	1.887	-0.52
secA2_input	0.269	0.131
delta_Rv3594	-0.078	-0.402
delta_Rv3717	0.062	-0.352
delta_Rv3811	0.073	-0.269
delta_Rv0954	0.124	-1.151
PonA1	0.329	0.032
EccD1_KO	0.753	-0.207
EspI_KO	-0.322	0.043
PE35_KO	-0.137	-0.28
PPE68_KO	0.099	-0.525
glycerol2	-0.059	0.347
lignocerate	0.499	0.157
oleate	0.274	0.296
phosphatidylcholine	0.296	0.451
acetate	0.733	0.474
glucAc	0.307	0.753
Rv0950ko	0.1	-0.057
Rv1096ko	0.473	0.226
Rv3684ko	1.52	-0.193
delta_otsA_trehalose	-0.045	-0.026