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 Rv1048c/-:

update plot	correlation	link to info on gene
Rv1288/-	(cc=0.4793)	info on Rv1288/-
Rv1615/-	(cc=0.4253)	info on Rv1615/-
Rv2031c/hspX	(cc=0.4232)	info on Rv2031c/hspX
Rv2888c/amiC	(cc=0.4022)	info on Rv2888c/amiC
Rv1739c/-	(cc=0.3972)	info on Rv1739c/-
Rv0141c/-	(cc=0.3857)	info on Rv0141c/-
Rv2478c/-	(cc=0.3854)	info on Rv2478c/-
Rv0894/-	(cc=0.3843)	info on Rv0894/-
Rv1250/-	(cc=0.3827)	info on Rv1250/-
Rv2725c/hflX	(cc=0.3789)	info on Rv2725c/hflX

Correlation of Rv1048c/- with Rv1615/-

Normalized LFCs for Rv1048c/-:
(description and provenance of datasets)

	Rv1048c/-	Rv1615/-
Fe_supp_jason_reseq	-0.44	-3.429
low_pH_jason_reseq	0.032	-1.571
NO_jason_reseq	0.0	-0.732
B6_jason_reseq	-0.363	-0.432
MHCII_jason_reseq	-0.108	-0.675
Isoniazid02	-0.055	-1.809
Rifampicin4	-0.035	1.224
Ethambutol3	0.347	-0.737
Meropenem3	1.105	-0.183
Vancomycin16	0.114	-0.146
Rv2680_day32	0.794	-0.463
H37Rv_KO_MarP	0.349	-1.29
hypoxia_3wks	-0.255	0.0
hypoxia_6wks	-0.238	-0.094
glycerol	0.274	-0.41
cholesterol	0.369	-0.745
AJ	0.592	0.123
Bibs02	-0.098	1.048
Bibs02c	-0.294	-0.452
BL6	-0.264	-0.689
BL6a	-0.106	-0.376
BXD01	0.123	0.395
BXD010	0.266	-0.392
BXD011	0.23	-0.929
BXD03	-0.507	0.185
BXD04	-0.231	1.351
BXD05	0.095	-0.122
BXD06	-0.081	-0.051
BXD07	0.097	-0.712
BXD08	-0.036	0.07
BXD09	-0.047	-0.626
CAST	0.442	0.325
CCcont	0.397	-0.617
DS01	0.279	-0.2
DS02	0.124	-0.603
DS04	0.394	0.557
DS0c	0.083	-0.036
GP01	-0.646	-1.394
GP02	-1.245	-1.711
GP0c	-0.758	-1.479
NOD	0.431	0.69
NZO	0.59	0.301
PWK	0.685	0.997
H37Rv_KO_CtpC	-0.58	-0.864
H37Rv_KO_CtpD	-0.267	-2.051
H37Rv_KO_Rv1272	0.438	-0.103
H37Rv_KO_SugABC	0.326	-1.767
H37Rv_KO_MbtN	0.457	0.555
Trans05	0.347	0.757
macrophage_unactivated	0.773	1.095
IL1	-0.575	-0.326
Rapamycin	-0.377	-0.374
Tcell	-0.104	-0.248
GMCSF	0.298	0.642
IFNab	0.602	-0.402
IFNg	-0.029	-0.056
IFNg_GMCSF1	1.254	1.09
Rv1432_day32	0.644	1.197
Rv1565c_day32	1.99	-0.136
secA2_input	-0.67	-0.7
delta_Rv3594	0.43	0.0
delta_Rv3717	0.065	-0.112
delta_Rv3811	0.503	-0.192
delta_Rv0954	0.277	-0.238
PonA1	0.09	-0.763
EccD1_KO	0.52	-0.724
EspI_KO	0.473	0.476
PE35_KO	0.312	0.041
PPE68_KO	0.397	0.253
glycerol2	0.245	-0.747
lignocerate	-0.192	-1.068
oleate	0.428	0.739
phosphatidylcholine	0.106	-0.409
acetate	0.15	-0.904
glucAc	-0.06	-1.654
Rv0950ko	-0.121	-0.787
Rv1096ko	-0.498	-0.618
Rv3684ko	-0.052	-0.495
delta_otsA_trehalose	-0.215	-0.773