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 Rv2659c/-:

update plot	correlation	link to info on gene
Rv3233c/-	(cc=0.5755)	info on Rv3233c/-
Rv1148c/-	(cc=0.5287)	info on Rv1148c/-
Rv2724c/fadE20	(cc=0.4854)	info on Rv2724c/fadE20
Rv2639c/-	(cc=0.4588)	info on Rv2639c/-
Rv1962c/vapC35	(cc=0.4575)	info on Rv1962c/vapC35
Rv3478/PPE60	(cc=0.4538)	info on Rv3478/PPE60
Rv3067/-	(cc=0.4331)	info on Rv3067/-
Rv3566c/nat	(cc=0.4296)	info on Rv3566c/nat
Rv2628/-	(cc=0.4188)	info on Rv2628/-
Rv2489c/-	(cc=0.4167)	info on Rv2489c/-

Correlation of Rv2659c/- with Rv2724c/fadE20

Normalized LFCs for Rv2659c/-:
(description and provenance of datasets)

	Rv2659c/-	Rv2724c/fadE20
Fe_supp_jason_reseq	0.035	-0.052
low_pH_jason_reseq	-0.545	-0.571
NO_jason_reseq	-0.029	0.215
B6_jason_reseq	-0.051	0.553
MHCII_jason_reseq	0.522	-0.271
Isoniazid02	-0.01	-0.431
Rifampicin4	-0.227	0.317
Ethambutol3	-0.091	-1.149
Meropenem3	-1.854	-1.343
Vancomycin16	-1.393	-0.69
Rv2680_day32	0.397	0.171
H37Rv_KO_MarP	0.277	0.282
hypoxia_3wks	-0.163	0.315
hypoxia_6wks	-0.163	0.808
glycerol	-0.268	-0.24
cholesterol	-0.358	-0.028
AJ	0.627	0.308
Bibs02	0.615	0.25
Bibs02c	-0.023	0.467
BL6	-0.11	0.089
BL6a	0.022	0.288
BXD01	-0.005	0.361
BXD010	-0.093	0.311
BXD011	0.129	0.141
BXD03	0.005	0.115
BXD04	0.088	0.583
BXD05	-0.265	0.583
BXD06	0.0	0.171
BXD07	0.238	0.214
BXD08	0.366	0.082
BXD09	-0.186	-0.129
CAST	0.179	0.639
CCcont	-0.454	-0.202
DS01	0.421	0.462
DS02	0.326	0.451
DS04	0.37	0.448
DS0c	0.393	0.432
GP01	0.747	0.342
GP02	-0.669	0.353
GP0c	-0.12	-0.258
NOD	1.3	0.801
NZO	0.452	0.397
PWK	0.81	0.76
H37Rv_KO_CtpC	0.175	0.145
H37Rv_KO_CtpD	-0.41	0.258
H37Rv_KO_Rv1272	0.529	-0.206
H37Rv_KO_SugABC	0.774	0.621
H37Rv_KO_MbtN	-0.108	-0.248
Trans05	-0.317	0.185
macrophage_unactivated	-0.325	-0.398
IL1	-0.359	-0.288
Rapamycin	-0.279	-0.712
Tcell	-0.072	-0.482
GMCSF	0.087	-0.94
IFNab	-0.366	-0.209
IFNg	0.406	-0.58
IFNg_GMCSF1	0.05	-0.352
Rv1432_day32	0.708	-0.039
Rv1565c_day32	0.706	0.319
secA2_input	0.146	-0.579
delta_Rv3594	0.56	0.944
delta_Rv3717	0.028	0.439
delta_Rv3811	0.561	0.473
delta_Rv0954	0.267	0.731
PonA1	-0.364	0.568
EccD1_KO	0.408	-0.306
EspI_KO	0.322	0.305
PE35_KO	0.265	-0.207
PPE68_KO	0.499	-0.566
glycerol2	-0.076	-0.163
lignocerate	-0.211	-0.402
oleate	0.546	0.381
phosphatidylcholine	0.412	-0.3
acetate	-0.687	-0.816
glucAc	-0.896	-0.573
Rv0950ko	0.081	-0.054
Rv1096ko	0.211	-0.739
Rv3684ko	-0.183	0.059
delta_otsA_trehalose	-0.7	-0.182