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 Rv1796/mycP5:

update plot	correlation	link to info on gene
Rv1795/eccD5	(cc=0.9758)	info on Rv1795/eccD5
Rv1794/-	(cc=0.9361)	info on Rv1794/-
Rv1782/eccB5	(cc=0.9281)	info on Rv1782/eccB5
Rv1783/eccC5	(cc=0.9086)	info on Rv1783/eccC5
Rv1797/eccE5	(cc=0.8793)	info on Rv1797/eccE5
Rv3399/-	(cc=0.4227)	info on Rv3399/-
Rv1063c/-	(cc=0.4221)	info on Rv1063c/-
Rv2065/cobH	(cc=0.4104)	info on Rv2065/cobH
Rv1267c/embR	(cc=0.4029)	info on Rv1267c/embR
Rv1781c/malQ	(cc=0.3958)	info on Rv1781c/malQ

Correlation of Rv1796/mycP5 with Rv1781c/malQ

Normalized LFCs for Rv1796/mycP5:
(description and provenance of datasets)

	Rv1796/mycP5	Rv1781c/malQ
Fe_supp_jason_reseq	1.07	-0.549
low_pH_jason_reseq	0.0	-0.54
NO_jason_reseq	0.0	-0.105
B6_jason_reseq	0.0	-0.496
MHCII_jason_reseq	0.0	0.452
Isoniazid02	0.0	-0.544
Rifampicin4	-0.341	0.468
Ethambutol3	-0.153	-0.426
Meropenem3	0.701	0.226
Vancomycin16	0.0	-0.398
Rv2680_day32	0.0	0.656
H37Rv_KO_MarP	3.913	0.0
hypoxia_3wks	0.0	-0.283
hypoxia_6wks	0.0	-0.278
glycerol	2.817	-0.072
cholesterol	1.261	-0.311
AJ	0.0	0.094
Bibs02	0.0	0.146
Bibs02c	0.887	0.565
BL6	0.0	-0.066
BL6a	0.198	0.093
BXD01	0.0	-0.443
BXD010	0.0	-0.096
BXD011	0.0	-0.209
BXD03	0.0	-0.541
BXD04	0.0	-0.546
BXD05	0.0	-0.174
BXD06	0.0	-0.589
BXD07	0.0	0.042
BXD08	0.0	-0.192
BXD09	0.0	-0.446
CAST	0.0	0.279
CCcont	0.285	-0.74
DS01	0.0	-0.214
DS02	0.0	-0.271
DS04	0.0	0.513
DS0c	0.0	-0.465
GP01	4.286	0.99
GP02	3.666	1.591
GP0c	4.971	0.908
NOD	0.0	0.451
NZO	0.0	0.153
PWK	0.0	0.273
H37Rv_KO_CtpC	0.0	0.177
H37Rv_KO_CtpD	0.0	0.714
H37Rv_KO_Rv1272	0.0	0.246
H37Rv_KO_SugABC	0.0	0.576
H37Rv_KO_MbtN	0.0	0.174
Trans05	0.0	0.428
macrophage_unactivated	0.0	-0.237
IL1	0.0	-0.35
Rapamycin	0.0	-0.123
Tcell	0.0	-0.779
GMCSF	0.0	-0.721
IFNab	0.0	0.0
IFNg	0.0	0.134
IFNg_GMCSF1	0.0	-0.292
Rv1432_day32	0.0	0.57
Rv1565c_day32	0.0	-0.011
secA2_input	0.216	0.249
delta_Rv3594	-0.211	-0.24
delta_Rv3717	0.992	0.284
delta_Rv3811	-0.205	0.138
delta_Rv0954	2.103	0.183
PonA1	-0.159	-0.095
EccD1_KO	-0.454	-0.207
EspI_KO	-0.394	0.282
PE35_KO	0.368	-0.715
PPE68_KO	0.0	-0.745
glycerol2	0.0	0.502
lignocerate	0.0	0.436
oleate	0.0	0.384
phosphatidylcholine	0.0	0.65
acetate	0.437	-0.057
glucAc	0.0	-0.241
Rv0950ko	0.669	-0.054
Rv1096ko	0.0	0.211
Rv3684ko	-0.413	-0.262
delta_otsA_trehalose	0.133	-0.034