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 Rv1795/eccD5:

update plot	correlation	link to info on gene
Rv1796/mycP5	(cc=0.9758)	info on Rv1796/mycP5
Rv1782/eccB5	(cc=0.9506)	info on Rv1782/eccB5
Rv1794/-	(cc=0.9383)	info on Rv1794/-
Rv1783/eccC5	(cc=0.9287)	info on Rv1783/eccC5
Rv1797/eccE5	(cc=0.8763)	info on Rv1797/eccE5
Rv1063c/-	(cc=0.4391)	info on Rv1063c/-
Rv1267c/embR	(cc=0.4194)	info on Rv1267c/embR
Rv3399/-	(cc=0.413)	info on Rv3399/-
Rv0538/-	(cc=0.3979)	info on Rv0538/-
Rv2065/cobH	(cc=0.3972)	info on Rv2065/cobH

Correlation of Rv1795/eccD5 with Rv2065/cobH

Normalized LFCs for Rv1795/eccD5:
(description and provenance of datasets)

	Rv1795/eccD5	Rv2065/cobH
Fe_supp_jason_reseq	0.415	1.088
low_pH_jason_reseq	0.0	-0.883
NO_jason_reseq	0.0	-0.173
B6_jason_reseq	0.0	0.635
MHCII_jason_reseq	0.0	0.568
Isoniazid02	0.0	1.612
Rifampicin4	0.0	0.961
Ethambutol3	0.0	0.071
Meropenem3	0.0	0.553
Vancomycin16	0.0	0.817
Rv2680_day32	0.0	0.67
H37Rv_KO_MarP	5.012	0.35
hypoxia_3wks	0.0	-0.303
hypoxia_6wks	0.0	-1.562
glycerol	4.046	1.023
cholesterol	1.325	1.205
AJ	0.0	-0.155
Bibs02	0.0	0.444
Bibs02c	1.028	1.079
BL6	0.0	-0.685
BL6a	0.377	0.73
BXD01	0.0	-0.291
BXD010	0.0	-0.537
BXD011	0.0	-0.614
BXD03	0.0	-1.216
BXD04	0.0	1.751
BXD05	0.0	-1.111
BXD06	0.0	-0.713
BXD07	0.0	-0.836
BXD08	0.0	0.34
BXD09	0.0	-0.996
CAST	0.23	0.23
CCcont	0.149	-0.087
DS01	0.0	0.529
DS02	0.0	1.046
DS04	0.0	0.318
DS0c	0.0	0.085
GP01	4.073	1.468
GP02	4.279	1.689
GP0c	5.395	1.738
NOD	0.0	0.643
NZO	0.0	0.11
PWK	0.0	-0.131
H37Rv_KO_CtpC	0.0	0.076
H37Rv_KO_CtpD	0.0	0.75
H37Rv_KO_Rv1272	0.0	-0.022
H37Rv_KO_SugABC	0.0	0.308
H37Rv_KO_MbtN	0.0	-0.18
Trans05	0.0	1.34
macrophage_unactivated	0.0	-0.991
IL1	0.0	0.047
Rapamycin	0.0	0.279
Tcell	0.0	-0.427
GMCSF	0.0	-0.628
IFNab	0.0	0.45
IFNg	0.0	-1.521
IFNg_GMCSF1	0.0	0.239
Rv1432_day32	0.0	0.544
Rv1565c_day32	0.0	-0.278
secA2_input	0.216	1.237
delta_Rv3594	0.0	-0.133
delta_Rv3717	0.853	0.081
delta_Rv3811	0.0	0.54
delta_Rv0954	2.536	0.941
PonA1	0.0	0.194
EccD1_KO	0.0	-0.372
EspI_KO	0.0	-0.639
PE35_KO	0.767	0.198
PPE68_KO	0.442	-0.259
glycerol2	0.0	0.0
lignocerate	0.0	0.112
oleate	0.0	0.445
phosphatidylcholine	0.0	0.483
acetate	0.0	0.211
glucAc	0.0	0.114
Rv0950ko	0.38	1.628
Rv1096ko	0.38	2.15
Rv3684ko	0.0	1.123
delta_otsA_trehalose	0.0	-0.728