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 Rv0141c/-

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

	Rv1048c/-	Rv0141c/-
Fe_supp_jason_reseq	-0.44	-0.764
low_pH_jason_reseq	0.032	-0.182
NO_jason_reseq	0.0	-0.181
B6_jason_reseq	-0.363	0.128
MHCII_jason_reseq	-0.108	0.178
Isoniazid02	-0.055	0.615
Rifampicin4	-0.035	-0.412
Ethambutol3	0.347	0.303
Meropenem3	1.105	0.165
Vancomycin16	0.114	0.507
Rv2680_day32	0.794	1.774
H37Rv_KO_MarP	0.349	-0.591
hypoxia_3wks	-0.255	0.032
hypoxia_6wks	-0.238	-0.733
glycerol	0.274	-0.644
cholesterol	0.369	-0.121
AJ	0.592	-0.062
Bibs02	-0.098	-0.076
Bibs02c	-0.294	0.721
BL6	-0.264	0.089
BL6a	-0.106	0.307
BXD01	0.123	-0.008
BXD010	0.266	0.285
BXD011	0.23	0.241
BXD03	-0.507	-0.383
BXD04	-0.231	0.177
BXD05	0.095	-0.235
BXD06	-0.081	0.12
BXD07	0.097	0.247
BXD08	-0.036	-0.036
BXD09	-0.047	0.401
CAST	0.442	1.126
CCcont	0.397	-0.41
DS01	0.279	0.407
DS02	0.124	0.77
DS04	0.394	0.474
DS0c	0.083	1.42
GP01	-0.646	-0.651
GP02	-1.245	-1.98
GP0c	-0.758	-1.07
NOD	0.431	2.652
NZO	0.59	0.191
PWK	0.685	0.874
H37Rv_KO_CtpC	-0.58	-0.533
H37Rv_KO_CtpD	-0.267	0.239
H37Rv_KO_Rv1272	0.438	0.127
H37Rv_KO_SugABC	0.326	0.406
H37Rv_KO_MbtN	0.457	-1.292
Trans05	0.347	-1.792
macrophage_unactivated	0.773	-0.142
IL1	-0.575	-0.053
Rapamycin	-0.377	-0.368
Tcell	-0.104	0.28
GMCSF	0.298	-0.42
IFNab	0.602	-0.856
IFNg	-0.029	0.118
IFNg_GMCSF1	1.254	0.399
Rv1432_day32	0.644	1.065
Rv1565c_day32	1.99	0.599
secA2_input	-0.67	-0.977
delta_Rv3594	0.43	-0.315
delta_Rv3717	0.065	-0.467
delta_Rv3811	0.503	-0.828
delta_Rv0954	0.277	0.194
PonA1	0.09	-0.643
EccD1_KO	0.52	-0.595
EspI_KO	0.473	0.819
PE35_KO	0.312	0.44
PPE68_KO	0.397	0.384
glycerol2	0.245	0.214
lignocerate	-0.192	-0.518
oleate	0.428	0.715
phosphatidylcholine	0.106	-0.195
acetate	0.15	-0.673
glucAc	-0.06	-1.034
Rv0950ko	-0.121	0.033
Rv1096ko	-0.498	-0.452
Rv3684ko	-0.052	0.072
delta_otsA_trehalose	-0.215	-0.025