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 Rv3832c/-:

update plot	correlation	link to info on gene
Rv1465/-	(cc=0.5066)	info on Rv1465/-
Rv3078/hab	(cc=0.4861)	info on Rv3078/hab
Rv3439c/-	(cc=0.4823)	info on Rv3439c/-
Rv2159c/-	(cc=0.4586)	info on Rv2159c/-
Rv0841/-	(cc=0.4537)	info on Rv0841/-
Rv1727/-	(cc=0.4485)	info on Rv1727/-
Rv2285/-	(cc=0.4413)	info on Rv2285/-
Rv1228/lpqX	(cc=0.4291)	info on Rv1228/lpqX
Rv2015c/-	(cc=0.4289)	info on Rv2015c/-
Rv3651/-	(cc=0.4237)	info on Rv3651/-

Correlation of Rv3832c/- with Rv2159c/-

Normalized LFCs for Rv3832c/-:
(description and provenance of datasets)

	Rv3832c/-	Rv2159c/-
Fe_supp_jason_reseq	0.128	-0.663
low_pH_jason_reseq	-0.621	-0.482
NO_jason_reseq	-0.181	-0.294
B6_jason_reseq	0.25	-1.212
MHCII_jason_reseq	-0.493	-0.206
Isoniazid02	-0.14	-0.214
Rifampicin4	0.087	0.891
Ethambutol3	0.103	-0.666
Meropenem3	0.347	-0.041
Vancomycin16	0.398	-0.785
Rv2680_day32	-0.452	0.098
H37Rv_KO_MarP	0.587	-0.428
hypoxia_3wks	-0.279	-0.183
hypoxia_6wks	-0.065	-1.762
glycerol	-0.255	1.754
cholesterol	-0.341	0.807
AJ	0.062	1.434
Bibs02	0.43	2.105
Bibs02c	-0.781	-0.133
BL6	-0.516	-0.419
BL6a	-0.301	-0.57
BXD01	-0.621	-0.468
BXD010	-1.004	-1.168
BXD011	-0.78	-0.739
BXD03	-1.77	-0.637
BXD04	-0.9	-0.265
BXD05	0.07	-0.111
BXD06	-0.406	-0.666
BXD07	-0.987	-0.297
BXD08	-0.968	-0.103
BXD09	-0.399	-0.34
CAST	-0.108	-0.224
CCcont	-0.029	-0.182
DS01	0.157	0.765
DS02	0.66	1.306
DS04	-1.148	0.989
DS0c	1.108	-0.211
GP01	0.18	1.236
GP02	1.32	2.055
GP0c	0.676	0.781
NOD	-0.661	-0.197
NZO	0.577	1.341
PWK	0.584	-0.071
H37Rv_KO_CtpC	-0.056	0.202
H37Rv_KO_CtpD	1.355	1.017
H37Rv_KO_Rv1272	-0.016	-0.991
H37Rv_KO_SugABC	-0.338	-1.371
H37Rv_KO_MbtN	0.043	-0.028
Trans05	-0.561	-0.406
macrophage_unactivated	0.256	-0.72
IL1	0.145	0.466
Rapamycin	0.439	-0.015
Tcell	-0.137	-0.847
GMCSF	0.702	0.071
IFNab	-0.369	0.067
IFNg	-1.013	-0.978
IFNg_GMCSF1	0.305	0.38
Rv1432_day32	0.192	0.566
Rv1565c_day32	0.194	-0.513
secA2_input	0.894	0.98
delta_Rv3594	0.525	0.835
delta_Rv3717	0.898	-0.181
delta_Rv3811	0.561	1.435
delta_Rv0954	2.296	-0.027
PonA1	0.641	0.895
EccD1_KO	1.371	2.71
EspI_KO	0.915	1.349
PE35_KO	0.578	1.73
PPE68_KO	0.381	1.213
glycerol2	0.196	0.794
lignocerate	0.526	0.168
oleate	-0.552	0.679
phosphatidylcholine	0.331	0.326
acetate	-0.175	-0.426
glucAc	0.348	-0.147
Rv0950ko	-0.413	-0.73
Rv1096ko	0.0	0.639
Rv3684ko	-0.115	0.134
delta_otsA_trehalose	-0.476	-0.482