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 Rv2841c/nusA:

update plot	correlation	link to info on gene
Rv1160/mutT2	(cc=0.6612)	info on Rv1160/mutT2
Rv1734c/-	(cc=0.6273)	info on Rv1734c/-
Rv3344c/PE_PGRS49	(cc=0.6237)	info on Rv3344c/PE_PGRS49
Rv3697c/vapC48	(cc=0.6194)	info on Rv3697c/vapC48
Rv0984/moaB2	(cc=0.6063)	info on Rv0984/moaB2
Rv1610/-	(cc=0.6062)	info on Rv1610/-
Rv3749c/-	(cc=0.6054)	info on Rv3749c/-
Rv2571c/-	(cc=0.5873)	info on Rv2571c/-
Rv0297/PE_PGRS5	(cc=0.5872)	info on Rv0297/PE_PGRS5
Rv2287/yjcE	(cc=0.5846)	info on Rv2287/yjcE

Correlation of Rv2841c/nusA with Rv1610/-

Normalized LFCs for Rv2841c/nusA:
(description and provenance of datasets)

	Rv2841c/nusA	Rv1610/-
Fe_supp_jason_reseq	0.0	1.897
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.829
Isoniazid02	-0.201	-0.496
Rifampicin4	0.0	-0.433
Ethambutol3	0.423	-0.302
Meropenem3	-0.165	3.35
Vancomycin16	0.0	-0.424
Rv2680_day32	0.0	1.806
H37Rv_KO_MarP	0.0	-1.065
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	-0.288
glycerol	0.202	0.325
cholesterol	0.509	-0.276
AJ	0.0	1.966
Bibs02	0.0	-0.348
Bibs02c	0.0	0.488
BL6	0.0	0.906
BL6a	0.0	-0.181
BXD01	0.0	-0.248
BXD010	0.0	-0.244
BXD011	0.0	-0.116
BXD03	0.0	0.649
BXD04	0.0	-0.236
BXD05	0.0	-0.256
BXD06	0.0	0.111
BXD07	0.0	-0.264
BXD08	0.0	-0.253
BXD09	0.0	0.596
CAST	0.439	-0.439
CCcont	0.0	0.0
DS01	0.83	1.134
DS02	0.0	1.925
DS04	0.0	-0.37
DS0c	0.0	-0.413
GP01	0.0	-0.09
GP02	0.0	-0.159
GP0c	0.0	0.474
NOD	0.225	-0.428
NZO	0.0	0.166
PWK	0.0	-0.374
H37Rv_KO_CtpC	0.571	0.688
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.329
H37Rv_KO_SugABC	0.0	1.716
H37Rv_KO_MbtN	0.103	-0.196
Trans05	0.131	-0.249
macrophage_unactivated	-2.14	-3.377
IL1	-2.011	-3.174
Rapamycin	-2.081	-2.863
Tcell	-2.209	-2.255
GMCSF	-1.79	-1.545
IFNab	-2.05	-0.922
IFNg	-1.812	-2.494
IFNg_GMCSF1	-2.13	-2.932
Rv1432_day32	-1.124	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.216	1.218
delta_Rv3594	0.742	-0.379
delta_Rv3717	0.736	0.424
delta_Rv3811	1.261	-0.507
delta_Rv0954	0.178	0.585
PonA1	0.0	-0.509
EccD1_KO	-0.595	0.201
EspI_KO	-0.799	-1.01
PE35_KO	-0.817	-0.805
PPE68_KO	-0.896	-0.883
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	0.727	-0.706
Rv1096ko	0.727	-0.706
Rv3684ko	1.772	0.0
delta_otsA_trehalose	0.133	0.0