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 Rv1288/-

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

	Rv1048c/-	Rv1288/-
Fe_supp_jason_reseq	-0.44	-0.069
low_pH_jason_reseq	0.032	-0.52
NO_jason_reseq	0.0	-0.116
B6_jason_reseq	-0.363	-0.17
MHCII_jason_reseq	-0.108	0.444
Isoniazid02	-0.055	0.068
Rifampicin4	-0.035	-0.181
Ethambutol3	0.347	1.507
Meropenem3	1.105	0.386
Vancomycin16	0.114	0.17
Rv2680_day32	0.794	0.156
H37Rv_KO_MarP	0.349	0.282
hypoxia_3wks	-0.255	-0.108
hypoxia_6wks	-0.238	-0.067
glycerol	0.274	-0.604
cholesterol	0.369	1.546
AJ	0.592	0.329
Bibs02	-0.098	-0.02
Bibs02c	-0.294	-0.047
BL6	-0.264	0.027
BL6a	-0.106	-0.075
BXD01	0.123	-0.049
BXD010	0.266	0.119
BXD011	0.23	0.535
BXD03	-0.507	0.143
BXD04	-0.231	0.168
BXD05	0.095	0.646
BXD06	-0.081	0.105
BXD07	0.097	0.272
BXD08	-0.036	0.137
BXD09	-0.047	0.177
CAST	0.442	0.22
CCcont	0.397	-0.554
DS01	0.279	-0.484
DS02	0.124	-0.274
DS04	0.394	0.186
DS0c	0.083	-0.368
GP01	-0.646	0.479
GP02	-1.245	0.242
GP0c	-0.758	0.164
NOD	0.431	0.898
NZO	0.59	-0.13
PWK	0.685	0.279
H37Rv_KO_CtpC	-0.58	-0.132
H37Rv_KO_CtpD	-0.267	-0.634
H37Rv_KO_Rv1272	0.438	0.575
H37Rv_KO_SugABC	0.326	0.271
H37Rv_KO_MbtN	0.457	-0.043
Trans05	0.347	0.52
macrophage_unactivated	0.773	-0.047
IL1	-0.575	0.264
Rapamycin	-0.377	-0.196
Tcell	-0.104	-0.016
GMCSF	0.298	0.523
IFNab	0.602	-0.178
IFNg	-0.029	0.115
IFNg_GMCSF1	1.254	0.336
Rv1432_day32	0.644	0.279
Rv1565c_day32	1.99	3.183
secA2_input	-0.67	-0.778
delta_Rv3594	0.43	0.113
delta_Rv3717	0.065	-0.525
delta_Rv3811	0.503	-0.086
delta_Rv0954	0.277	-0.017
PonA1	0.09	0.134
EccD1_KO	0.52	0.763
EspI_KO	0.473	0.702
PE35_KO	0.312	0.618
PPE68_KO	0.397	0.953
glycerol2	0.245	-0.108
lignocerate	-0.192	-0.108
oleate	0.428	-0.058
phosphatidylcholine	0.106	0.206
acetate	0.15	-0.337
glucAc	-0.06	-0.287
Rv0950ko	-0.121	-0.154
Rv1096ko	-0.498	-0.259
Rv3684ko	-0.052	0.128
delta_otsA_trehalose	-0.215	-0.033