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 Rv0613c/-:

update plot	correlation	link to info on gene
Rv1163/narJ	(cc=0.6212)	info on Rv1163/narJ
Rv0614/-	(cc=0.6192)	info on Rv0614/-
Rv2490c/PE_PGRS43	(cc=0.6173)	info on Rv2490c/PE_PGRS43
Rv0648/-	(cc=0.5761)	info on Rv0648/-
Rv2741/PE_PGRS47	(cc=0.5704)	info on Rv2741/PE_PGRS47
Rv1378c/-	(cc=0.5572)	info on Rv1378c/-
Rv2669/-	(cc=0.5507)	info on Rv2669/-
Rv3026c/-	(cc=0.5366)	info on Rv3026c/-
Rv3897c/-	(cc=0.5273)	info on Rv3897c/-
Rv3590c/PE_PGRS58	(cc=0.5228)	info on Rv3590c/PE_PGRS58

Correlation of Rv0613c/- with Rv3897c/-

Normalized LFCs for Rv0613c/-:
(description and provenance of datasets)

	Rv0613c/-	Rv3897c/-
Fe_supp_jason_reseq	-1.264	0.082
low_pH_jason_reseq	-2.106	-0.552
NO_jason_reseq	-0.643	-1.257
B6_jason_reseq	0.221	0.291
MHCII_jason_reseq	0.773	0.249
Isoniazid02	-0.576	0.07
Rifampicin4	0.187	0.785
Ethambutol3	0.77	0.502
Meropenem3	-0.367	0.806
Vancomycin16	0.183	0.345
Rv2680_day32	1.226	2.136
H37Rv_KO_MarP	0.676	0.313
hypoxia_3wks	-0.538	-0.754
hypoxia_6wks	-0.505	-0.307
glycerol	1.002	0.96
cholesterol	0.774	0.497
AJ	0.59	1.434
Bibs02	0.188	1.359
Bibs02c	0.45	1.761
BL6	-0.553	0.482
BL6a	-0.339	0.558
BXD01	-0.472	0.25
BXD010	-0.253	0.253
BXD011	-0.238	-0.312
BXD03	-0.886	0.03
BXD04	0.215	-0.137
BXD05	-1.429	-0.849
BXD06	-0.675	0.133
BXD07	-0.7	-0.3
BXD08	-0.024	-0.62
BXD09	-1.03	-0.469
CAST	0.496	0.339
CCcont	-0.65	0.259
DS01	0.659	0.253
DS02	0.523	1.174
DS04	0.758	0.59
DS0c	0.24	-0.277
GP01	0.23	0.834
GP02	0.881	1.263
GP0c	-0.06	0.48
NOD	-0.041	0.286
NZO	0.549	0.799
PWK	0.678	0.519
H37Rv_KO_CtpC	-0.786	-0.049
H37Rv_KO_CtpD	-0.119	-0.262
H37Rv_KO_Rv1272	-0.459	0.347
H37Rv_KO_SugABC	-1.183	0.126
H37Rv_KO_MbtN	-1.082	0.111
Trans05	-2.271	1.091
macrophage_unactivated	-0.208	-1.174
IL1	-0.403	-1.634
Rapamycin	-0.144	-0.273
Tcell	-1.043	-1.14
GMCSF	-0.277	0.024
IFNab	-0.967	-0.16
IFNg	-1.563	-1.179
IFNg_GMCSF1	-0.239	-0.899
Rv1432_day32	-0.07	0.375
Rv1565c_day32	0.349	-0.199
secA2_input	0.03	1.019
delta_Rv3594	0.364	0.228
delta_Rv3717	0.086	0.263
delta_Rv3811	0.076	0.503
delta_Rv0954	-0.068	-0.456
PonA1	-0.429	0.287
EccD1_KO	0.283	1.128
EspI_KO	0.317	-0.077
PE35_KO	-0.158	0.172
PPE68_KO	-0.262	0.208
glycerol2	0.419	0.856
lignocerate	0.799	1.299
oleate	0.618	0.133
phosphatidylcholine	0.322	0.668
acetate	-0.143	1.219
glucAc	0.238	1.534
Rv0950ko	-0.063	1.785
Rv1096ko	1.164	1.984
Rv3684ko	0.069	1.402
delta_otsA_trehalose	-1.054	-0.623