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 Rv3344c/PE_PGRS49

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

	Rv2841c/nusA	Rv3344c/PE_PGRS49
Fe_supp_jason_reseq	0.0	-1.058
low_pH_jason_reseq	0.0	-1.604
NO_jason_reseq	0.0	-0.845
B6_jason_reseq	0.0	-0.895
MHCII_jason_reseq	0.0	-0.171
Isoniazid02	-0.201	1.292
Rifampicin4	0.0	0.948
Ethambutol3	0.423	2.134
Meropenem3	-0.165	4.472
Vancomycin16	0.0	0.276
Rv2680_day32	0.0	-0.261
H37Rv_KO_MarP	0.0	0.505
hypoxia_3wks	0.0	-0.933
hypoxia_6wks	0.0	-1.357
glycerol	0.202	2.652
cholesterol	0.509	1.799
AJ	0.0	1.861
Bibs02	0.0	0.823
Bibs02c	0.0	2.53
BL6	0.0	-0.53
BL6a	0.0	1.121
BXD01	0.0	0.89
BXD010	0.0	-1.192
BXD011	0.0	-0.762
BXD03	0.0	0.459
BXD04	0.0	0.156
BXD05	0.0	-0.235
BXD06	0.0	-0.621
BXD07	0.0	0.388
BXD08	0.0	-0.111
BXD09	0.0	-0.386
CAST	0.439	0.179
CCcont	0.0	-0.462
DS01	0.83	-0.488
DS02	0.0	0.113
DS04	0.0	1.127
DS0c	0.0	-0.52
GP01	0.0	0.754
GP02	0.0	0.963
GP0c	0.0	-0.841
NOD	0.225	-0.322
NZO	0.0	0.344
PWK	0.0	-0.163
H37Rv_KO_CtpC	0.571	0.205
H37Rv_KO_CtpD	0.0	1.136
H37Rv_KO_Rv1272	0.0	2.135
H37Rv_KO_SugABC	0.0	0.101
H37Rv_KO_MbtN	0.103	1.843
Trans05	0.131	0.964
macrophage_unactivated	-2.14	-0.9
IL1	-2.011	-2.856
Rapamycin	-2.081	-3.182
Tcell	-2.209	-3.138
GMCSF	-1.79	-1.127
IFNab	-2.05	-3.622
IFNg	-1.812	-2.771
IFNg_GMCSF1	-2.13	-1.668
Rv1432_day32	-1.124	1.031
Rv1565c_day32	0.0	-1.579
secA2_input	-0.216	0.02
delta_Rv3594	0.742	4.285
delta_Rv3717	0.736	2.782
delta_Rv3811	1.261	2.231
delta_Rv0954	0.178	1.371
PonA1	0.0	2.185
EccD1_KO	-0.595	0.132
EspI_KO	-0.799	0.302
PE35_KO	-0.817	0.117
PPE68_KO	-0.896	0.064
glycerol2	0.0	1.078
lignocerate	0.0	1.432
oleate	0.0	0.951
phosphatidylcholine	0.0	1.032
acetate	0.0	0.086
glucAc	0.0	1.829
Rv0950ko	0.727	0.76
Rv1096ko	0.727	0.956
Rv3684ko	1.772	1.965
delta_otsA_trehalose	0.133	0.654