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 Rv3219/whiB1:

update plot	correlation	link to info on gene
Rv1860/apa	(cc=0.5487)	info on Rv1860/apa
Rv0641/rplA	(cc=0.5427)	info on Rv0641/rplA
Rv2700/-	(cc=0.5372)	info on Rv2700/-
Rv2201/asnB	(cc=0.5297)	info on Rv2201/asnB
Rv2980/-	(cc=0.5278)	info on Rv2980/-
Rv0127/mak	(cc=0.5213)	info on Rv0127/mak
Rv1360/-	(cc=0.5142)	info on Rv1360/-
Rv1208/gpgS	(cc=0.5065)	info on Rv1208/gpgS
Rv1419/-	(cc=0.4832)	info on Rv1419/-
Rv2416c/eis	(cc=0.4765)	info on Rv2416c/eis

Correlation of Rv3219/whiB1 with Rv1860/apa

Normalized LFCs for Rv3219/whiB1:
(description and provenance of datasets)

	Rv3219/whiB1	Rv1860/apa
Fe_supp_jason_reseq	0.0	3.272
low_pH_jason_reseq	0.0	-0.457
NO_jason_reseq	0.0	0.129
B6_jason_reseq	0.0	0.054
MHCII_jason_reseq	0.0	-0.101
Isoniazid02	-0.706	-1.043
Rifampicin4	-0.942	-5.772
Ethambutol3	-0.13	0.061
Meropenem3	0.12	-0.701
Vancomycin16	-0.923	-5.858
Rv2680_day32	0.0	1.123
H37Rv_KO_MarP	-0.195	-3.981
hypoxia_3wks	0.0	-1.958
hypoxia_6wks	0.0	-3.197
glycerol	0.0	1.934
cholesterol	0.0	1.239
AJ	0.0	-0.541
Bibs02	0.0	0.898
Bibs02c	0.0	0.838
BL6	0.0	-0.822
BL6a	0.0	-0.55
BXD01	0.0	-1.087
BXD010	0.0	-1.021
BXD011	0.0	-0.643
BXD03	0.0	-0.934
BXD04	0.0	-1.131
BXD05	0.0	-0.123
BXD06	0.0	-1.014
BXD07	0.0	-1.156
BXD08	0.0	-0.564
BXD09	0.0	-0.75
CAST	0.0	-1.59
CCcont	0.0	1.056
DS01	0.0	0.801
DS02	0.0	0.737
DS04	0.0	1.248
DS0c	0.0	-0.652
GP01	0.0	-0.682
GP02	0.0	-1.0
GP0c	0.0	-1.085
NOD	0.0	-1.01
NZO	0.0	0.626
PWK	0.0	-0.544
H37Rv_KO_CtpC	0.162	1.966
H37Rv_KO_CtpD	0.0	-0.751
H37Rv_KO_Rv1272	0.0	0.141
H37Rv_KO_SugABC	0.0	1.422
H37Rv_KO_MbtN	0.103	0.349
Trans05	0.0	1.414
macrophage_unactivated	0.0	0.609
IL1	0.0	-0.78
Rapamycin	0.0	-0.328
Tcell	0.0	-0.857
GMCSF	0.0	0.09
IFNab	0.0	-0.553
IFNg	0.0	-0.286
IFNg_GMCSF1	0.0	-0.22
Rv1432_day32	0.0	1.0
Rv1565c_day32	0.0	0.351
secA2_input	0.0	1.19
delta_Rv3594	0.402	1.386
delta_Rv3717	0.0	0.839
delta_Rv3811	0.0	1.423
delta_Rv0954	0.0	2.022
PonA1	0.0	0.397
EccD1_KO	0.454	0.918
EspI_KO	0.394	1.189
PE35_KO	0.0	1.021
PPE68_KO	1.213	1.315
glycerol2	0.0	-0.563
lignocerate	0.0	-0.521
oleate	0.0	-0.173
phosphatidylcholine	0.0	-1.097
acetate	0.0	0.648
glucAc	0.0	0.153
Rv0950ko	0.416	-1.049
Rv1096ko	0.0	-0.98
Rv3684ko	0.452	0.138
delta_otsA_trehalose	0.0	-0.86