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 Rv2792c/-:

update plot	correlation	link to info on gene
Rv2071c/cobM	(cc=0.5652)	info on Rv2071c/cobM
Rv2548/vapC19	(cc=0.5553)	info on Rv2548/vapC19
Rv3151/nuoG	(cc=0.5472)	info on Rv3151/nuoG
Rv1217c/-	(cc=0.5453)	info on Rv1217c/-
Rv3152/nuoH	(cc=0.5396)	info on Rv3152/nuoH
Rv2161c/-	(cc=0.5307)	info on Rv2161c/-
Rv1561/vapC11	(cc=0.527)	info on Rv1561/vapC11
Rv3148/nuoD	(cc=0.5207)	info on Rv3148/nuoD
Rv2777c/-	(cc=0.5167)	info on Rv2777c/-
Rv1948c/-	(cc=0.5132)	info on Rv1948c/-

Correlation of Rv2792c/- with Rv1217c/-

Normalized LFCs for Rv2792c/-:
(description and provenance of datasets)

	Rv2792c/-	Rv1217c/-
Fe_supp_jason_reseq	0.104	-1.089
low_pH_jason_reseq	-2.541	-0.447
NO_jason_reseq	0.646	0.546
B6_jason_reseq	-2.183	-1.434
MHCII_jason_reseq	-2.462	-1.363
Isoniazid02	1.362	0.742
Rifampicin4	0.19	0.23
Ethambutol3	2.607	-0.139
Meropenem3	-0.277	-0.194
Vancomycin16	0.69	0.279
Rv2680_day32	0.259	0.4
H37Rv_KO_MarP	0.313	0.031
hypoxia_3wks	0.786	0.327
hypoxia_6wks	-0.081	0.334
glycerol	0.353	1.229
cholesterol	1.321	0.187
AJ	-0.398	-0.573
Bibs02	-0.456	-1.044
Bibs02c	1.449	1.173
BL6	0.825	1.525
BL6a	2.274	0.875
BXD01	1.396	0.552
BXD010	1.793	0.817
BXD011	2.015	0.068
BXD03	1.751	1.087
BXD04	0.972	0.329
BXD05	2.023	0.413
BXD06	1.533	0.515
BXD07	1.892	0.481
BXD08	1.177	0.588
BXD09	1.337	0.959
CAST	0.999	-0.267
CCcont	1.058	0.813
DS01	1.993	0.0
DS02	0.134	-0.391
DS04	1.845	0.749
DS0c	0.068	-0.536
GP01	1.446	0.645
GP02	1.964	0.658
GP0c	2.515	0.665
NOD	1.022	-0.89
NZO	-0.269	-0.873
PWK	-1.026	-0.418
H37Rv_KO_CtpC	0.488	1.109
H37Rv_KO_CtpD	1.252	1.628
H37Rv_KO_Rv1272	2.241	0.598
H37Rv_KO_SugABC	-1.047	1.335
H37Rv_KO_MbtN	-0.539	-0.747
Trans05	0.861	1.28
macrophage_unactivated	-0.142	-0.152
IL1	-1.044	-0.602
Rapamycin	0.555	0.611
Tcell	-0.567	-0.319
GMCSF	0.267	1.352
IFNab	-1.179	-0.372
IFNg	0.82	0.126
IFNg_GMCSF1	0.091	0.688
Rv1432_day32	0.302	-0.464
Rv1565c_day32	0.573	-0.117
secA2_input	0.454	-1.446
delta_Rv3594	0.532	0.402
delta_Rv3717	0.965	1.09
delta_Rv3811	0.518	0.721
delta_Rv0954	-0.404	0.85
PonA1	-0.822	-0.238
EccD1_KO	-0.954	-0.257
EspI_KO	0.616	-1.041
PE35_KO	0.443	-1.21
PPE68_KO	-0.093	-0.122
glycerol2	0.844	-0.095
lignocerate	0.692	-0.112
oleate	1.381	0.237
phosphatidylcholine	1.522	0.469
acetate	0.204	0.376
glucAc	0.152	-0.047
Rv0950ko	-2.325	-0.712
Rv1096ko	-0.271	-0.06
Rv3684ko	-2.06	-1.601
delta_otsA_trehalose	0.847	0.763